Started by user <a href='/user/arnoldg' class='jenkins-table__link model-link model-link--float'>anonymous</a>
Building on master in workspace /var/lib/jenkins/workspace/LAMMPS
Updating <a href='https://github.com/kc9qey/SWTools-BWCI/trunk/lammps@HEAD'>https://github.com/kc9qey/SWTools-BWCI/trunk/lammps@HEAD</a> at revision HEAD
At revision 24

No changes for <a href='https://github.com/kc9qey/SWTools-BWCI/trunk/lammps'>https://github.com/kc9qey/SWTools-BWCI/trunk/lammps</a> since the previous build
[LAMMPS] $ /bin/sh -xe /tmp/jenkins7405155519731289520.sh
+ /usr/local/bin/jenkins_sync /var/lib/jenkins/workspace/LAMMPS/lammps
NCSA JYC System 
Access status: User Access UnRestricted.

Access by OTP or Two Factor Certificate Authority only.
Use myproxy-logon -s tfca.ncsa.illinois.edu -p 7512 for gsissh access.
gsissh or ssh -o PreferredAuthentications=keyboard-interactive for otp access.

Restricted access during weekly scheduled maintenance on Wednesdays 10AM - 6PM

executing script:
PATH="/sw/tools/bin:/sw/tools/bin:$PATH"
SW_CONFIG="/scratch/system/bwjenkins/sw_config"
PYTHONPATH="/sw/tools/bin:/sw/tools/bin:$PYTHONPATH"
SW_ROOT="/scratch/system/bwjenkins/tests"

echo $PATH $SW_CONFIG $PYTHONPATH &gt; /dev/null
export SW_CONFIG=$SW_CONFIG
env
cd /tmp
git clone <a href='https://github.com/kc9qey/SWTools-BWCI'>https://github.com/kc9qey/SWTools-BWCI</a>
cd SWTools-BWCI
cp -R lammps $SW_ROOT
cd /tmp
rm -rf SWTools-BWCI
cd $SW_ROOT
#cd lammps/15May15/cle5.2_gnu4.9.3
cd lammps/15May15/cle5.2_gnu5.1.0
swbuildwait
PE_SMA_DEFAULT_PKGCONFIG_VARIABLES=PE_SMA_COMPFLAG_@prgenv@
PE_LIBSCI_VOLATILE_PRGENV=CRAY GNU INTEL PGI
CRAY_BINUTILS_BIN=/opt/cray/cce/8.7.7/binutils/x86_64/bin
KSH_AUTOLOAD=1
MODULE_VERSION_STACK=3.2.10.5
LESSKEY=/etc/lesskey.bin
PE_MPICH_GENCOMPILERS_PGI=15.3
PE_CXX_PKGCONFIG_LIBS=mpichcxx
PE_PETSC_DEFAULT_GENCOMPS_CRAY_skylake=86
PE_PETSC_DEFAULT_GENCOMPILERS_CRAY_sandybridge=8.6
PE_PAPI_DEFAULT_ACCEL_FAMILY_LIBS_nvidia=,-lcupti,-lcudart,-lcuda
NNTPSERVER=news
INFODIR=/usr/local/info:/usr/share/info:/usr/info
MANPATH=/sw/EasyBuild/software/gnuplot/5.0.5/share/man:/sw/EasyBuild/software/wget/1.19.4/share/man:/sw/EasyBuild/software/cURL/7.59.0/share/man:/opt/java/jdk1.8.0_51/man:/usr/local/globus-6.0/man:/opt/cray/mpt/7.7.4/gni/man/mpich:/opt/torque/6.1.2/share/man:/opt/moab/9.1.2.h2/share/man/:/opt/cray/atp/2.1.0/man:/opt/cray/pmi/5.0.11/man:/opt/cray/libsci/18.12.1/man:/opt/cray/man/csmlversion:/opt/cray/craype/2.5.16/man:/opt/cray/cce/8.7.7/man:/opt/cray/llm/default/man:/opt/cray/lustre-cray_gem_s/2.5_3.0.101_0.46.1_1.0502.8871.44.1-1.0502.21728.75.3/man:/opt/cray/alps/5.2.4-2.0502.9774.31.12.gem/man:/opt/modules/3.2.10.5/share/man:/usr/local/man:/usr/share/man:/usr/man:/opt/cray/share/man:/opt/cray/man:/u/system/bwjenkins/man
MODIMP_KEEP_MODULE_LIST_IN_ENV=no
XALT_ETC_DIR=/opt/xalt/0.7.6/sles11.3/etc
EBROOTGIT=/sw/EasyBuild/software/git/2.17.0
PE_PETSC_DEFAULT_GENCOMPS_PGI_x86_64=1710
PE_PETSC_DEFAULT_GENCOMPILERS_INTEL_mic_knl=16.0
PE_LIBSCI_ACC_DEFAULT_PKGCONFIG_VARIABLES=PE_LIBSCI_ACC_DEFAULT_NV_SUFFIX_@accelerator@
PE_FFTW_DEFAULT_TARGET_mic_knl=mic_knl
GCC_X86_64=/opt/gcc/6.1.0/snos
GCC_AARCH64=/opt/gcc-cross-aarch64/6.1.0/aarch64
CRAY_UDREG_INCLUDE_OPTS=-I/opt/cray/udreg/2.3.2-1.0502.10518.2.17.gem/include
HOSTNAME=jyc1
PE_TRILINOS_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/trilinos/12.12.1.1/@PRGENV@/@PE_TRILINOS_DEFAULT_GENCOMPS@/@PE_TRILINOS_DEFAULT_TARGET@/lib/pkgconfig
PE_SMA_DEFAULT_COMPFLAG_GNU=-fcray-pointer
PE_PARALLEL_NETCDF_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/parallel-netcdf/1.8.1.4/@PRGENV@/@PE_PARALLEL_NETCDF_DEFAULT_GENCOMPS@/lib/pkgconfig
PE_NETCDF_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/netcdf/4.4.1.1/@PRGENV@/@PE_NETCDF_DEFAULT_GENCOMPS@/lib/pkgconfig
PE_ACML_DEFAULT_DIR_GNU=gfortran64
ASSEMBLER_AARCH64=/opt/cray/cce/8.7.7/binutils/cross/x86_64-aarch64/aarch64-linux-gnu/bin/as
RCLOCAL_BASEOPTS=true
LIBRARYMODULES=/opt/modules/3.2.10.5/init/.librarymodules:acml:alps:cray-dwarf:cray-fftw:cray-ga:cray-hdf5:cray-hdf5-parallel:cray-libsci:cray-libsci_acc:cray-mpich:cray-mpich2:cray-mpich-abi:cray-netcdf:cray-netcdf-hdf5parallel:cray-parallel-netcdf:cray-petsc:cray-petsc-complex:cray-shmem:cray-tpsl:cray-trilinos:cudatoolkit:fftw:ga:hdf5:hdf5-parallel:iobuf:libfast:netcdf:netcdf-hdf5parallel:ntk:onesided:papi:petsc:petsc-complex:pmi:tpsl:trilinos:xt-libsci:xt-mpich2:xt-mpt:xt-papi:/etc/opt/cray/modules/site_librarymodules
CRAY_SITE_LIST_DIR=/etc/opt/cray/modules
XKEYSYMDB=/usr/share/X11/XKeysymDB
EBDEVELOPENSSL=/sw/EasyBuild/software/OpenSSL/1.0.2m/easybuild/OpenSSL-1.0.2m-easybuild-devel
PE_SMA_DEFAULT_COMPFLAG=
PE_MPICH_ALTERNATE_LIBS_dpm=_dpm
PE_HDF5_DEFAULT_GENCOMPILERS_GNU=5.1 4.9
PE_ENV=CRAY
PE_ACML_DEFAULT_DIR_DEFAULT64=_int64
CRAY_FTN_VERSION=8.7.7
CRAY_BINUTILS_ROOT=/opt/cray/cce/8.7.7/binutils/x86_64/x86_64-pc-linux-gnu/../
EBDEVELGNUPLOT=/sw/EasyBuild/software/gnuplot/5.0.5/easybuild/gnuplot-5.0.5-easybuild-devel
PKGCONFIG_ENABLED=1
PE_ACML_DEFAULT_TARGET_interlagos=_fma4
ASSEMBLER_X86_64=/opt/cray/cce/8.7.7/binutils/x86_64/x86_64-pc-linux-gnu/bin/as
HOST=jyc1
SHELL=/bin/bash
XTOS_VERSION=5.2.82
PE_TPSL_DEFAULT_GENCOMPILERS_GNU_x86_skylake=8.2
PE_PETSC_DEFAULT_GENCOMPS_CRAY_sandybridge=86
LINKER_AARCH64=/opt/cray/cce/8.7.7/binutils/cross/x86_64-aarch64/aarch64-linux-gnu/bin/ld
PROFILEREAD=true
HISTSIZE=1000
GLOBUS_PATH=/usr/local/globus-6.0
GLOBUS_LOCATION=/usr/local/globus-6.0
PE_MPICH_DIR_PGI_DEFAULT64=64
PE_TRILINOS_DEFAULT_VOLATILE_PRGENV=GNU
PE_TPSL_DEFAULT_REQUIRED_PRODUCTS=PE_MPICH:PE_LIBSCI
PE_TPSL_DEFAULT_GENCOMPS_GNU_sandybridge=82
PE_PETSC_DEFAULT_GENCOMPS_PGI_interlagos=1710
PE_PETSC_DEFAULT_GENCOMPS_INTEL_haswell=160
PE_PETSC_DEFAULT_GENCOMPS_GNU_haswell=82 53
PE_PARALLEL_NETCDF_DEFAULT_VOLATILE_PRGENV=GNU
PE_NETCDF_DEFAULT_VOLATILE_PRGENV=GNU
FORTRAN_SYSTEM_MODULE_NAMES=ftn_lib_definitions
CRAYPE_DIR=/opt/cray/craype/2.5.16
CRAY_XPMEM_POST_LINK_OPTS=-L/opt/cray/xpmem/0.1-2.0502.64982.7.26.gem/lib64
CRAY_UGNI_POST_LINK_OPTS=-L/opt/cray/ugni/6.0-1.0502.10863.8.28.gem/lib64
SSH_CLIENT=141.142.192.225 40766 22
LIBRARY_PATH=/sw/EasyBuild/software/cURL/7.59.0/lib:/sw/EasyBuild/software/OpenSSL/1.0.2m/lib
XALT_DIR=/opt/xalt/0.7.6/sles11.3
ALT_LINKER=/opt/xalt/0.7.6/sles11.3/bin/ld
CRAY_MPICH2_DIR=/opt/cray/mpt/7.7.4/gni/mpich-cray/8.6
PE_PETSC_DEFAULT_GENCOMPS_CRAY_interlagos=86
PE_PETSC_DEFAULT_GENCOMPILERS_PGI_x86_64=17.10
PE_NETCDF_HDF5PARALLEL_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/netcdf-hdf5parallel/4.4.1.1/@PRGENV@/@PE_NETCDF_HDF5PARALLEL_DEFAULT_GENCOMPS@/lib/pkgconfig
PE_HDF5_PARALLEL_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/hdf5-parallel/1.10.0.1/@PRGENV@/@PE_HDF5_PARALLEL_DEFAULT_GENCOMPS@/lib/pkgconfig
PE_HDF5_DEFAULT_VOLATILE_PRGENV=GNU
PE_FFTW_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/fftw/3.3.6.5/@PE_FFTW_DEFAULT_TARGET@/lib/pkgconfig
PE_ACML_DEFAULT_DIR_CRAY=gfortran64
PE_LIBSCI_DEFAULT_GENCOMPS_GNU_x86_64=81 71 51
PE_GA_DEFAULT_VOLATILE_PRGENV=GNU
MODIMP_ENABLE_DYNAMIC_PROMPT=no
PE_MPICH_GENCOMPS_GNU=82 71 51
PE_PKGCONFIG_PRODUCTS=PE_MPICH:PE_LIBSCI
PE_MPICH_DEFAULT_GENCOMPILERS_GNU=8.2 7.1 5.1
PE_LIBSCI_ACC_DEFAULT_REQUIRED_PRODUCTS=PE_MPICH:PE_LIBSCI
PE_LIBSCI_ACC_DEFAULT_GENCOMPS_CRAY_x86_64=83
FPATH=:/opt/modules/3.2.10.5/init/sh_funcs/no_redirect:/opt/modules/3.2.10.5/init/sh_funcs/no_redirect
MORE=-sl
PE_TPSL_64_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/tpsl/18.06.1/@PRGENV@64/@PE_TPSL_64_DEFAULT_GENCOMPS@/@PE_TPSL_64_DEFAULT_TARGET@/lib/pkgconfig
PE_PETSC_DEFAULT_REQUIRED_PRODUCTS=PE_MPICH:PE_LIBSCI:PE_HDF5_PARALLEL:PE_TPSL
PE_PAPI_DEFAULT_ACCEL_LIBS_nvidia35=,-lcupti,-lcudart,-lcuda
QTDIR=/usr/lib/qt3
PE_CRAY_DEFAULT_FIXED_PKGCONFIG_PATH=/opt/cray/parallel-netcdf/1.8.1.4/CRAY/8.6/lib/pkgconfig:/opt/cray/netcdf-hdf5parallel/4.4.1.1/CRAY/8.3/lib/pkgconfig:/opt/cray/netcdf/4.4.1.1/CRAY/8.3/lib/pkgconfig:/opt/cray/hdf5-parallel/1.10.0.1/CRAY/8.3/lib/pkgconfig:/opt/cray/hdf5/1.10.0.1/CRAY/8.3/lib/pkgconfig:/opt/cray/ga/5.3.0.9/CRAY/8.6/lib/pkgconfig
PE_FORTRAN_PKGCONFIG_LIBS=mpichf90
PE_PETSC_DEFAULT_GENCOMPS_CRAY_x86_64=86
PE_PETSC_DEFAULT_GENCOMPILERS_PGI_interlagos=17.10
PE_LIBSCI_DEFAULT_OMP_REQUIRES_openmp=_mp
ALLINEA_QUEUE_DLL=/opt/cray/mpt/7.7.4/gni/mpich-cray/8.6/lib/libtvmpich.so.3.0.1
PE_SMA_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/mpt/7.7.4/gni/sma@PE_SMA_DEFAULT_DIR_DEFAULT64@/lib64/pkgconfig
CRAY_PRGENVCRAY=loaded
CRAY_BINUTILS_VERSION=/opt/cray/cce/8.7.7
CRAY_BINUTILS_ROOT_AARCH64=/opt/cray/cce/8.7.7/binutils/cross/x86_64-aarch64/aarch64-linux-gnu/../
EBROOTWGET=/sw/EasyBuild/software/wget/1.19.4
CRAY_MPICH_BASEDIR=/opt/cray/mpt/7.7.4/gni
PE_LIBSCI_ACC_DEFAULT_VOLATILE_PRGENV=CRAY GNU
PE_ACML_DEFAULT_DIR_INTEL=ifort64
PE_NETCDF_HDF5PARALLEL_DEFAULT_GENCOMPILERS_GNU=5.1 4.9
PE_HDF5_PARALLEL_DEFAULT_GENCOMPILERS_GNU=5.1 4.9
PE_ACML_DEFAULT_TARGET_x86_64=
JRE_HOME=/opt/java/jdk1.8.0_51/jre
USER=bwjenkins
PE_TRILINOS_DEFAULT_GENCOMPILERS_GNU_x86_64=8.2
PE_PETSC_DEFAULT_GENCOMPILERS_INTEL_interlagos=16.0
PE_LIBSCI_DEFAULT_VOLATILE_PRGENV=CRAY GNU INTEL PGI
PE_FFTW_DEFAULT_TARGET_interlagos=interlagos
LS_COLORS=
LD_LIBRARY_PATH=/sw/xe/darshan/3.1.3/darshan-3.1.3/lib:/sw/EasyBuild/software/OpenSSL/1.0.2m/lib:/usr/local/globus-6.0/lib
GPT_LOCATION=/usr/local/globus-6.0
PE_MPICH_FIXED_PRGENV=INTEL
PE_TPSL_64_DEFAULT_GENCOMPILERS_GNU_sandybridge=8.2
PE_PKGCONFIG_LIBS=darshan-runtime:mpich:AtpSigHandler:cray-rca:libsci_mpi:libsci
PE_PETSC_DEFAULT_VOLATILE_PRGENV=CRAY CRAY64 GNU GNU64 INTEL INTEL64 PGI PGI64
PE_LIBSCI_PKGCONFIG_VARIABLES=PE_LIBSCI_OMP_REQUIRES_@openmp@:PE_SCI_EXT_LIBPATH:PE_SCI_EXT_LIBNAME
CRAY_RCA_POST_LINK_OPTS=-L/opt/cray/rca/1.0.0-2.0502.60530.1.63.gem/lib64 -lrca 
VAR_ACE=/var/ace
PE_TPSL_DEFAULT_GENCOMPS_GNU_haswell=82
PE_PETSC_DEFAULT_GENCOMPS_INTEL_sandybridge=160
PE_PETSC_DEFAULT_GENCOMPS_INTEL_interlagos=160
PE_PETSC_DEFAULT_GENCOMPS_GNU_sandybridge=82 53
PE_PETSC_DEFAULT_GENCOMPS_GNU_interlagos=82 53
PE_PETSC_DEFAULT_GENCOMPILERS_INTEL_skylake=16.0
PE_PETSC_DEFAULT_GENCOMPILERS_CRAY_x86_64=8.6
PE_PETSC_DEFAULT_GENCOMPILERS_CRAY_mic_knl=8.6
FTN_X86_64=/opt/cray/cce/8.7.7/cce/x86_64
XNLSPATH=/usr/share/X11/nls
EBVERSIONCURL=7.59.0
MPICH_DIR=/opt/cray/mpt/7.7.4/gni/mpich-cray/8.6
PE_TPSL_64_DEFAULT_GENCOMPILERS_GNU_interlagos=8.2
PE_PETSC_DEFAULT_GENCOMPS_INTEL_mic_knl=160
PE_PETSC_DEFAULT_GENCOMPS_GNU_mic_knl=53
PE_PETSC_DEFAULT_GENCOMPILERS_CRAY_haswell=8.6
PE_PAPI_DEFAULT_PKGCONFIG_VARIABLES=PE_PAPI_ACCEL_LIBS_@accelerator@ PE_PAPI_ACCEL_FAMILY_LIBS_@accelerator_family@
PE_LIBSCI_DEFAULT_GENCOMPS_CRAY_x86_64=86
MPICH_ABORT_ON_ERROR=1
CRAY_CXX_IPA_LIBS=/opt/cray/cce/8.7.7/cce/x86_64/lib/libcray-c++-rts.a
ENV=/etc/bash.bashrc
CPATH=/sw/EasyBuild/software/cURL/7.59.0/include:/sw/EasyBuild/software/OpenSSL/1.0.2m/include
PE_MPICH_FORTRAN_PKGCONFIG_LIBS=mpichf90
PE_PETSC_DEFAULT_GENCOMPILERS_INTEL_sandybridge=16.0
PE_NETCDF_HDF5PARALLEL_DEFAULT_REQUIRED_PRODUCTS=PE_HDF5_PARALLEL:PE_MPICH
PE_HDF5_PARALLEL_DEFAULT_REQUIRED_PRODUCTS=PE_MPICH
PE_FFTW_DEFAULT_TARGET_sandybridge=sandybridge
PE_FFTW_DEFAULT_REQUIRED_PRODUCTS=PE_MPICH
ATP_POST_LINK_OPTS=-Wl,-L/opt/cray/atp/2.1.0/libApp/ 
HOSTTYPE=x86_64
TMOUT=86400
EBDEVELGIT=/sw/EasyBuild/software/git/2.17.0/easybuild/git-2.17.0-easybuild-devel
RCLOCAL_PRGENV=true
PE_PETSC_DEFAULT_GENCOMPILERS_GNU_mic_knl=5.3
PE_TPSL_DEFAULT_GENCOMPS_GNU_interlagos=82
PE_LIBSCI_GENCOMPS_INTEL_x86_64=160
PE_LIBSCI_DEFAULT_GENCOMPILERS_INTEL_x86_64=16.0
PE_PRODUCT_LIST=CRAYPE_INTERLAGOS:CRAY_RCA:CRAY_PMI:CRAY_LIBSCI:CRAYPE:CRAY:CRAY_LLM:CRAY_XPMEM:CRAY_DMAPP:CRAY_UGNI:CRAY_UDREG:CRAY_ALPS
FROM_HEADER=
LIBPATH=/usr/local/globus-6.0/lib
CRAY_MPICH_ROOTDIR=/opt/cray/mpt/7.7.4
PE_TPSL_DEFAULT_GENCOMPS_GNU_x86_skylake=82
PE_PETSC_DEFAULT_GENCOMPILERS_GNU_x86_64=8.2 5.3
PE_MPICH_DEFAULT_GENCOMPS_PGI=153
PAGER=less
JAVA_PATH=/opt/java/jdk1.8.0_51
PE_MPICH_MODULE_NAME=cray-mpich
PE_MPICH_GENCOMPILERS_CRAY=8.6
PE_PETSC_DEFAULT_GENCOMPS_INTEL_skylake=160
PE_PETSC_DEFAULT_GENCOMPS_GNU_skylake=82 73
PE_LIBSCI_GENCOMPILERS_GNU_x86_64=8.1 7.1 5.1
CSHEDIT=emacs
PE_TPSL_64_DEFAULT_REQUIRED_PRODUCTS=PE_MPICH:PE_LIBSCI
PE_MPICH_TARGET_VAR_nvidia20=-lcudart
PE_MPICH_DEFAULT_VOLATILE_PRGENV=CRAY GNU PGI
PE_LIBSCI_GENCOMPS_CRAY_x86_64=86
PE_LIBSCI_DEFAULT_GENCOMPILERS_CRAY_x86_64=8.6
XDG_CONFIG_DIRS=/etc/xdg
MODIMP_AVAILABLE_MODULES=
EBDEVELWGET=/sw/EasyBuild/software/wget/1.19.4/easybuild/wget-1.19.4-easybuild-devel
PE_TPSL_64_DEFAULT_GENCOMPS_GNU_x86_64=82
PE_PARALLEL_NETCDF_DEFAULT_GENCOMPS_GNU=82 51
PE_NETCDF_DEFAULT_GENCOMPS_GNU=51 49
PE_LIBSCI_PKGCONFIG_LIBS=libsci_mpi:libsci
PE_LIBSCI_ACC_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/libsci_acc/16.03.1/@PRGENV@/@PE_LIBSCI_ACC_DEFAULT_GENCOMPS@/@PE_LIBSCI_ACC_DEFAULT_TARGET@/lib/pkgconfig
PE_ACML_DEFAULT_DIR_PGI=pgi64
NLSPATH=/opt/cray/cce/8.7.7/cce/x86_64/share/nls/En/%N.cat
CRAY_LIBSCI_DIR=/opt/cray/libsci/18.12.1
CRAY_LIBSCI_BASE_DIR=/opt/cray/libsci/18.12.1
CRAY_DMAPP_INCLUDE_OPTS=-I/opt/cray/dmapp/7.0.1-1.0502.11080.8.74.gem/include -I/opt/cray/gni-headers/4.0-1.0502.10859.7.8.gem/include 
USERMODULES=/opt/modules/3.2.10.5/init/.usermodules:acml:alps:apprentice:apprentice2:atp:blcr:cce:chapel:cray-ccdb:cray-fftw:cray-ga:cray-hdf5:cray-hdf5-parallel:cray-lgdb:cray-libsci:cray-libsci_acc:cray-mpich:cray-mpich2:cray-mpich-compat:cray-netcdf:cray-netcdf-hdf5parallel:cray-parallel-netcdf:craypat:craype:cray-petsc:cray-petsc-complex:craypkg-gen:cray-shmem:cray-snplauncher:cray-tpsl:cray-trilinos:cudatoolkit:ddt:fftw:ga:hdf5:hdf5-parallel:intel:iobuf:java:lgdb:libfast:libsci_acc:mpich1:netcdf:netcdf-hdf5parallel:netcdf-nofsync:netcdf-nofsync-hdf5parallel:ntk:onesided:papi:parallel-netcdf:pathscale:perftools:perftools-lite:petsc:petsc-complex:pgi:pmi:PrgEnv-cray:PrgEnv-gnu:PrgEnv-intel:PrgEnv-pathscale:PrgEnv-pgi:stat:totalview:tpsl:trilinos:xt-asyncpe:xt-craypat:xt-lgdb:xt-libsci:xt-mpich2:xt-mpt:xt-papi:xt-shmem:xt-totalview:/etc/opt/cray/modules/site_usermodules
MINICOM=-c on
PE_MPICH_GENCOMPILERS_GNU=8.2 7.1 5.1
PE_TPSL_DEFAULT_GENCOMPILERS_GNU_x86_64=8.2
PE_PKGCONFIG_DEFAULT_PRODUCTS=PE_TRILINOS:PE_TPSL_64:PE_TPSL:PE_PETSC:PE_PARALLEL_NETCDF:PE_NETCDF_HDF5PARALLEL:PE_NETCDF:PE_MPICH:PE_LIBSCI_ACC:PE_LIBSCI:PE_HDF5_PARALLEL:PE_HDF5:PE_GA:PE_FFTW:PE_ACML
PE_HDF5_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/hdf5/1.10.0.1/@PRGENV@/@PE_HDF5_DEFAULT_GENCOMPS@/lib/pkgconfig
MODULE_VERSION=3.2.10.5
MAIL=/var/mail/bwjenkins
PATH=/sw/tools/bin:/sw/tools/bin:/sw/xe/darshan/3.1.3/darshan-3.1.3/bin:/sw/EasyBuild/software/gnuplot/5.0.5/bin:/sw/EasyBuild/software/wget/1.19.4/bin:/sw/EasyBuild/software/git/2.17.0/bin:/sw/EasyBuild/software/cURL/7.59.0/bin:/sw/EasyBuild/software/OpenSSL/1.0.2m/bin:/sw/user/scripts:/sw/admin/scripts:/opt/xalt/0.7.6/sles11.3/libexec:/opt/xalt/0.7.6/sles11.3/bin:/usr/local/gsi-openssh-7.5p1b/bin:/usr/local/gsi-openssh-7.5p1b/libexec:/opt/java/jdk1.8.0_51/bin:/usr/local/globus-6.0/bin:/usr/local/globus-6.0/sbin:/opt/cray/mpt/7.7.4/gni/bin:/opt/torque/6.1.2/sbin:/opt/torque/6.1.2/bin:/opt/moab/9.1.2.h2/bin:/opt/moab/9.1.2.h2/sbin:/opt/cray/rca/1.0.0-2.0502.60530.1.63.gem/bin:/opt/cray/craype/2.5.16/bin:/opt/cray/cce/8.7.7/binutils/x86_64/x86_64-pc-linux-gnu/bin:/opt/cray/cce/8.7.7/binutils/cross/x86_64-aarch64/aarch64-linux-gnu/../bin:/opt/cray/cce/8.7.7/utils/x86_64/bin:/opt/cray/llm/default/bin:/opt/cray/llm/default/etc:/opt/cray/xpmem/0.1-2.0502.64982.7.26.gem/bin:/opt/cray/ugni/6.0-1.0502.10863.8.28.gem/bin:/opt/cray/udreg/2.3.2-1.0502.10518.2.17.gem/bin:/opt/cray/lustre-cray_gem_s/2.5_3.0.101_0.46.1_1.0502.8871.44.1-1.0502.21728.75.3/sbin:/opt/cray/lustre-cray_gem_s/2.5_3.0.101_0.46.1_1.0502.8871.44.1-1.0502.21728.75.3/bin:/opt/cray/alps/5.2.4-2.0502.9774.31.12.gem/sbin:/opt/cray/alps/5.2.4-2.0502.9774.31.12.gem/bin:/opt/cray/sdb/1.1-1.0502.63652.4.27.gem/bin:/opt/cray/nodestat/2.2-1.0502.60539.1.31.gem/bin:/opt/modules/3.2.10.5/bin:/u/system/bwjenkins/bin:/usr/local/bin:/usr/bin:/bin:/usr/bin/X11:/usr/X11R6/bin:/usr/games:/usr/lib/mit/bin:/usr/lib/mit/sbin:.:/usr/lib/qt3/bin:/opt/cray/bin
PE_TPSL_DEFAULT_GENCOMPILERS_GNU_haswell=8.2
PE_TPSL_64_DEFAULT_GENCOMPILERS_GNU_x86_skylake=8.2
PE_PETSC_DEFAULT_GENCOMPS_CRAY_mic_knl=86
PE_PARALLEL_NETCDF_DEFAULT_GENCOMPILERS_GNU=8.2 5.1
PE_NETCDF_DEFAULT_GENCOMPILERS_GNU=5.1 4.9
PE_MPICH_DEFAULT_DIR_PGI_DEFAULT64=64
PE_LIBSCI_DEFAULT_GENCOMPS_PGI_x86_64=153
PE_FFTW_DEFAULT_TARGET_abudhabi=abudhabi
ATP_IGNORE_SIGTERM=1
XTPE_NETWORK_TARGET=gemini
CPU=x86_64
SW_CONFIG=/scratch/system/bwjenkins/sw_config
PE_SMA_DEFAULT_DIR_CRAY_DEFAULT64=64
PE_NETCDF_HDF5PARALLEL_DEFAULT_GENCOMPS_GNU=51 49
PE_NETCDF_HDF5PARALLEL_DEFAULT_FIXED_PRGENV=CRAY PGI INTEL
PE_HDF5_PARALLEL_DEFAULT_GENCOMPS_GNU=51 49
PE_HDF5_PARALLEL_DEFAULT_FIXED_PRGENV=CRAY PGI INTEL
CRAY_PE_TARGET=x86-64
CRAY_CXX_IPA_LIBS_AARCH64=/opt/cray/cce/8.7.7/cce/aarch64/lib/libcray-c++-rts.a
CRAY_CCE_SHARE=/opt/cray/cce/8.7.7/cce/x86_64/share
JAVA_BINDIR=/opt/java/jdk1.8.0_51/bin
PE_TPSL_64_DEFAULT_VOLATILE_PRGENV=GNU GNU64
CRAY_UDREG_POST_LINK_OPTS=-L/opt/cray/udreg/2.3.2-1.0502.10518.2.17.gem/lib64
EBROOTOPENSSL=/sw/EasyBuild/software/OpenSSL/1.0.2m
PE_MPICH_VOLATILE_PRGENV=CRAY GNU PGI
CRAYPE_VERSION=2.5.16
CRAY_ALPS_POST_LINK_OPTS=-L/opt/cray/alps/5.2.4-2.0502.9774.31.12.gem/lib64
INPUTRC=/u/system/bwjenkins/.inputrc
PWD=/mnt/abc/u/system/bwjenkins
XALT_TRANSMISSION_STYLE=directdb
PE_PETSC_DEFAULT_GENCOMPILERS_GNU_sandybridge=8.2 5.3
PE_MPICH_DEFAULT_GENCOMPS_CRAY=86
PE_LIBSCI_DEFAULT_OMP_REQUIRES=
INCLUDE_PATH_X86_64=/opt/cray/cce/8.7.7/cce/x86_64/include/craylibs
_LMFILES_=/opt/modulefiles/modules/3.2.10.5:/opt/cray/gem/modulefiles/nodestat/2.2-1.0502.60539.1.31.gem:/opt/cray/gem/modulefiles/sdb/1.1-1.0502.63652.4.27.gem:/opt/cray/gem/modulefiles/alps/5.2.4-2.0502.9774.31.12.gem:/opt/cray/modulefiles/lustre-cray_gem_s/2.5_3.0.101_0.46.1_1.0502.8871.44.1-1.0502.21728.75.3:/opt/cray/gem/modulefiles/udreg/2.3.2-1.0502.10518.2.17.gem:/opt/cray/gem/modulefiles/ugni/6.0-1.0502.10863.8.28.gem:/opt/cray/gem/modulefiles/gni-headers/4.0-1.0502.10859.9.26.gem:/opt/cray/gem/modulefiles/dmapp/7.0.1-1.0502.11080.8.74.gem:/opt/cray/gem/modulefiles/xpmem/0.1-2.0502.64982.7.26.gem:/opt/modulefiles/hss-llm/7.2.0:/opt/modulefiles/Base-opts/1.0.2-1.0502.60680.2.4.gem:/opt/modulefiles/cce/8.7.7:/opt/cray/craype/2.5.16/modulefiles/craype-network-gemini:/opt/cray/modulefiles/craype/2.5.16:/opt/cray/modulefiles/cray-libsci/18.12.1:/opt/cray/gem/modulefiles/pmi/5.0.11:/opt/cray/gem/modulefiles/rca/1.0.0-2.0502.60530.1.63.gem:/opt/cray/modulefiles/atp/2.1.0:/opt/cray/modulefiles/PrgEnv-cray/5.2.82:/opt/modulefiles/moab/9.1.2.h2-sles11:/opt/modulefiles/torque/6.1.2:/opt/cray/craype/2.5.16/modulefiles/craype-interlagos:/opt/cray/modulefiles/cray-mpich/7.7.4:/opt/modulefiles/java/jdk1.8.0_51:/usr/local/modulefiles/globus/6.0:/usr/local/modulefiles/gsissh/7.5p1b:/opt/modulefiles/xalt/0.7.6.local:/sw/xe/modulefiles/scripts:/sw/EasyBuild/modules/all/OpenSSL/1.0.2m:/sw/EasyBuild/modules/all/cURL/7.59.0:/sw/EasyBuild/modules/all/git/2.17.0:/sw/EasyBuild/modules/all/wget/1.19.4:/sw/xe/modulefiles/user-paths:/sw/EasyBuild/modules/all/gnuplot/5.0.5:/sw/xe/modulefiles/darshan/3.1.3
TARGETMODULES=/opt/modules/3.2.10.5/init/.targetmodules:craype-abudhabi:craype-abudhabi-cu:craype-accel-host:craype-accel-nvidia20:craype-accel-nvidia30:craype-accel-nvidia35:craype-barcelona:craype-broadwell:craype-haswell:craype-hugepages128K:craype-hugepages128M:craype-hugepages16M:craype-hugepages256M:craype-hugepages2M:craype-hugepages32M:craype-hugepages4M:craype-hugepages512K:craype-hugepages512M:craype-hugepages64M:craype-hugepages8M:craype-intel-knc:craype-interlagos:craype-interlagos-cu:craype-istanbul:craype-ivybridge:craype-mc12:craype-mc8:craype-mic-knl:craype-network-aries:craype-network-gemini:craype-network-infiniband:craype-network-none:craype-network-seastar:craype-sandybridge:craype-shanghai:craype-target-compute_node:craype-target-local_host:craype-target-native:craype-xeon:xtpe-barcelona:xtpe-interlagos:xtpe-interlagos-cu:xtpe-istanbul:xtpe-mc12:xtpe-mc8:xtpe-network-gemini:xtpe-network-seastar:xtpe-shanghai:xtpe-target-native:xtpe-xeon:/etc/opt/cray/modules/site_targetmodules
JAVA_HOME=/opt/java/jdk1.8.0_51
PE_PETSC_DEFAULT_GENCOMPILERS_CRAY_skylake=8.6
PE_LIBSCI_MODULE_NAME=cray-libsci/18.12.1
PE_LIBSCI_ACC_DEFAULT_NV_SUFFIX_nvidia20=nv20
PE_INTEL_FIXED_PKGCONFIG_PATH=/opt/cray/mpt/7.7.4/gni/mpich-intel/16.0/lib/pkgconfig
PE_TPSL_64_DEFAULT_GENCOMPS_GNU_x86_skylake=82
PE_LIBSCI_GENCOMPS_PGI_x86_64=153
PE_LIBSCI_DEFAULT_GENCOMPILERS_PGI_x86_64=15.3
LANG=en_US.UTF-8
JAVA_VERSION=jdk1.8.0_51
PE_MPICH_VOLATILE_PKGCONFIG_PATH=/opt/cray/mpt/7.7.4/gni/mpich-@PRGENV@@PE_MPICH_DIR_DEFAULT64@/@PE_MPICH_GENCOMPS@/lib/pkgconfig
MOABHOMEDIR=/var/spool/moab
PE_MPICH_NV_LIBS_nvidia20=-lcudart
PE_LIBSCI_GENCOMPILERS_CRAY_x86_64=8.6
PE_ACML_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/acml/5.3.1/@PE_ACML_DEFAULT_DIR@@PE_ACML_DEFAULT_TARGET@@PE_ACML_DEFAULT_DIR_OPENMP@@PE_ACML_DEFAULT_DIR_DEFAULT64@/lib/pkgconfig
MODULEPATH=/sw/EasyBuild/modules/all:/sw/bw/modulefiles:/sw/xe/modulefiles:/usr/local/modulefiles:/opt/cray/craype/2.5.16/modulefiles:/opt/cray/gem/modulefiles:/opt/cray/modulefiles:/opt/modulefiles
PYTHONSTARTUP=/etc/pythonstart
SHMEM_ABORT_ON_ERROR=1
LOADEDMODULES=modules/3.2.10.5:nodestat/2.2-1.0502.60539.1.31.gem:sdb/1.1-1.0502.63652.4.27.gem:alps/5.2.4-2.0502.9774.31.12.gem:lustre-cray_gem_s/2.5_3.0.101_0.46.1_1.0502.8871.44.1-1.0502.21728.75.3:udreg/2.3.2-1.0502.10518.2.17.gem:ugni/6.0-1.0502.10863.8.28.gem:gni-headers/4.0-1.0502.10859.9.26.gem:dmapp/7.0.1-1.0502.11080.8.74.gem:xpmem/0.1-2.0502.64982.7.26.gem:hss-llm/7.2.0:Base-opts/1.0.2-1.0502.60680.2.4.gem:cce/8.7.7:craype-network-gemini:craype/2.5.16:cray-libsci/18.12.1:pmi/5.0.11:rca/1.0.0-2.0502.60530.1.63.gem:atp/2.1.0:PrgEnv-cray/5.2.82:moab/9.1.2.h2-sles11:torque/6.1.2:craype-interlagos:cray-mpich/7.7.4:java/jdk1.8.0_51:globus/6.0:gsissh/7.5p1b:xalt/0.7.6.local:scripts:OpenSSL/1.0.2m:cURL/7.59.0:git/2.17.0:wget/1.19.4:user-paths:gnuplot/5.0.5:darshan/3.1.3
SDK_HOME=/usr/lib64/jvm/java
PE_TPSL_64_DEFAULT_GENCOMPS_GNU_interlagos=82
PE_PKG_CONFIG_PATH=/opt/cray/cti/1.0.4/lib/pkgconfig:/opt/cray/cti/1.0.1/lib/pkgconfig
PE_FFTW_DEFAULT_TARGET_x86_skylake=x86_skylake
PE_FFTW_DEFAULT_TARGET_share=share
PE_FFTW_DEFAULT_TARGET_ivybridge=ivybridge
CRAY_BINUTILS_ROOT_X86_64=/opt/cray/cce/8.7.7/binutils/x86_64/x86_64-pc-linux-gnu/../
CRAY_DMAPP_POST_LINK_OPTS=-L/opt/cray/dmapp/7.0.1-1.0502.11080.8.74.gem/lib64
MYPROXY_SERVER=tfca.ncsa.illinois.edu
PE_PETSC_DEFAULT_GENCOMPILERS_GNU_skylake=8.2 7.3
PE_LIBSCI_OMP_REQUIRES_openmp=_mp
CRAY_RCA_INCLUDE_OPTS=-I/opt/cray/rca/1.0.0-2.0502.60530.1.63.gem/include -I/opt/cray/krca/1.0.0-2.0502.67049.8.29.gem/include -I/opt/cray-hss-devel/7.2.0/include 
PE_MPICH_CXX_PKGCONFIG_LIBS=mpichcxx
CRAY_MPICH_DIR=/opt/cray/mpt/7.7.4/gni/mpich-cray/8.6
LM_LICENSE_FILE=1701@141.142.192.215:1701@141.142.192.216:1703@141.142.192.215:1703@141.142.192.216:1705@141.142.192.215:1705@141.142.192.216:1707@141.142.192.215:1707@141.142.192.216
PE_MPICH_PKGCONFIG_VARIABLES=PE_MPICH_NV_LIBS_@accelerator@:PE_MPICH_ALTERNATE_LIBS_@multithreaded@:PE_MPICH_ALTERNATE_LIBS_@dpm@
PE_LIBSCI_DEFAULT_GENCOMPS_INTEL_x86_64=160
PE_LIBSCI_ACC_DEFAULT_GENCOMPILERS_GNU_x86_64=4.9
CRAY_BINUTILS_BIN_AARCH64=/opt/cray/cce/8.7.7/binutils/cross/x86_64-aarch64/aarch64-linux-gnu/bin
PE_MPICH_PKGCONFIG_LIBS=mpich
CRAY_MPICH2_VER=7.7.4
PE_TPSL_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/tpsl/18.06.1/@PRGENV@/@PE_TPSL_DEFAULT_GENCOMPS@/@PE_TPSL_DEFAULT_TARGET@/lib/pkgconfig
PE_HDF5_DEFAULT_FIXED_PRGENV=CRAY PGI INTEL
CRAY_PMI_POST_LINK_OPTS=-L/opt/cray/pmi/5.0.11/lib64
CRAY_CC_VERSION=8.7.7
EBVERSIONGNUPLOT=5.0.5
PE_PARALLEL_NETCDF_DEFAULT_FIXED_PRGENV=CRAY PGI INTEL
PE_NETCDF_DEFAULT_FIXED_PRGENV=CRAY PGI INTEL
PE_MPICH_ALTERNATE_LIBS_multithreaded=_mt
PE_LIBSCI_VOLATILE_PKGCONFIG_PATH=/opt/cray/libsci/18.12.1/@PRGENV@/@PE_LIBSCI_GENCOMPS@/@PE_LIBSCI_TARGET@/lib/pkgconfig
PE_LIBSCI_ACC_DEFAULT_GENCOMPS_GNU_x86_64=49
PE_GA_DEFAULT_GENCOMPILERS_GNU=8.2 7.3 5.3
EBVERSIONGIT=2.17.0
PE_TPSL_64_DEFAULT_GENCOMPS_GNU_haswell=82
PE_PKGCONFIG_PRODUCTS_DEFAULT=PE_PAPI
PE_NETCDF_HDF5PARALLEL_DEFAULT_VOLATILE_PRGENV=GNU
PE_MPICH_TARGET_VAR_nvidia35=-lcudart
PE_HDF5_PARALLEL_DEFAULT_VOLATILE_PRGENV=GNU
CRAY_LIBSCI_VERSION=18.12.1
QT_SYSTEM_DIR=/usr/share/desktop-data
JDK_HOME=/usr/lib64/jvm/java
SHLVL=1
HOME=/u/system/bwjenkins
CURL_INCLUDES=/sw/EasyBuild/software/cURL/7.59.0/include
GLOBUS_TCP_PORT_RANGE=50000,51000
PE_LIBSCI_GENCOMPILERS_PGI_x86_64=15.3
LESS_ADVANCED_PREPROCESSOR=no
OSTYPE=linux
EBDEVELCURL=/sw/EasyBuild/software/cURL/7.59.0/easybuild/cURL-7.59.0-easybuild-devel
PE_TPSL_DEFAULT_VOLATILE_PRGENV=GNU GNU64
PE_PETSC_DEFAULT_GENCOMPILERS_CRAY_interlagos=8.6
PE_MPICH_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/mpt/7.7.4/gni/mpich-@PRGENV@@PE_MPICH_DEFAULT_DIR_DEFAULT64@/@PE_MPICH_DEFAULT_GENCOMPS@/lib/pkgconfig
PE_ACML_DEFAULT_DIR_OPENMP=_mp
LINKER_X86_64=/opt/cray/cce/8.7.7/binutils/x86_64/x86_64-pc-linux-gnu/bin/ld
CRAY_PMI_INCLUDE_OPTS=-I/opt/cray/pmi/5.0.11/include
XCURSOR_THEME=crystalwhite
LS_OPTIONS=-N --color=none -T 0
DYLD_LIBRARY_PATH=/usr/local/globus-6.0/lib
PE_MPICH_DIR_CRAY_DEFAULT64=64
PKG_CONFIG_PATH_DEFAULT=/opt/cray/papi/5.6.0.5/lib64/pkgconfig
CRAYLMD_LICENSE_FILE=/opt/cray/cce/cce.lic
ATP_MRNET_COMM_PATH=/opt/cray/atp/2.1.0/libexec/atp_mrnet_commnode_wrapper
CRAYPE_NETWORK_TARGET=gemini
CRAY_LLM_DIR=/opt/cray/llm/default
PRGENVMODULES=/opt/modules/3.2.10.5/init/.prgenvmodules:PrgEnv-cray:PrgEnv-gnu:PrgEnv-intel:PrgEnv-pathscale:PrgEnv-pgi
WINDOWMANAGER=
EBROOTGNUPLOT=/sw/EasyBuild/software/gnuplot/5.0.5
EBVERSIONWGET=1.19.4
PE_TPSL_DEFAULT_GENCOMPILERS_GNU_interlagos=8.2
PE_PETSC_DEFAULT_GENCOMPILERS_GNU_haswell=8.2 5.3
PE_LEVEL=8.7
EBROOTCURL=/sw/EasyBuild/software/cURL/7.59.0
PE_TRILINOS_DEFAULT_REQUIRED_PRODUCTS=PE_MPICH:PE_HDF5_PARALLEL:PE_NETCDF_HDF5PARALLEL:PE_LIBSCI:PE_TPSL
PE_TPSL_DEFAULT_GENCOMPS_GNU_x86_64=82
PE_TPSL_64_DEFAULT_GENCOMPILERS_GNU_haswell=8.2
PE_NETCDF_DEFAULT_REQUIRED_PRODUCTS=PE_HDF5
PE_MPICH_NV_LIBS=
PE_HDF5_DEFAULT_GENCOMPS_GNU=51 49
CRAY_LIBSCI_PREFIX_DIR=/opt/cray/libsci/18.12.1/CRAY/8.6/x86_64
CRAYLIBS_X86_64=/opt/cray/cce/8.7.7/cce/x86_64/lib
CRAYLIBS_AARCH64=/opt/cray/cce/8.7.7/cce/aarch64/lib
PYTHONPATH=/sw/tools/bin:/sw/tools/bin:/opt/xalt/0.7.6/sles11.3/libexec:/opt/cray/sdb/1.1-1.0502.63652.4.27.gem/lib64/py
CRAY_GNI_HEADERS_INCLUDE_OPTS=-I/opt/cray/gni-headers/4.0-1.0502.10859.9.26.gem/include
G_FILENAME_ENCODING=@locale,UTF-8,ISO-8859-15,CP1252
LESS=-M -I
MACHTYPE=x86_64-suse-linux
LOGNAME=bwjenkins
PE_MPICH_GENCOMPS_CRAY=86
PE_TRILINOS_DEFAULT_GENCOMPS_GNU_x86_64=82
PE_MPICH_DEFAULT_GENCOMPILERS_CRAY=8.6
PE_LIBSCI_OMP_REQUIRES=
DMAPP_ABORT_ON_ERROR=1
CVS_RSH=ssh
PE_MPICH_DEFAULT_GENCOMPS_GNU=82 71 51
PE_MPICH_DEFAULT_FIXED_PRGENV=INTEL
PE_LIBSCI_DEFAULT_REQUIRED_PRODUCTS=PE_MPICH
PE_LIBSCI_ACC_DEFAULT_NV_SUFFIX_nvidia35=nv35
PE_LIBSCI_ACC_DEFAULT_GENCOMPILERS_CRAY_x86_64=8.3
TOOLMODULES=/opt/modules/3.2.10.5/init/.toolmodules:apprentice:apprentice2:atp:chapel:cray-lgdb:craypat:craypkg-gen:cray-snplauncher:ddt:gdb:iobuf:papi:perftools:perftools-lite:stat:totalview:xt-craypat:xt-lgdb:xt-papi:xt-totalview:/etc/opt/cray/modules/site_toolmodules
XDG_DATA_DIRS=/usr/share:/etc/opt/kde3/share:/opt/kde3/share
SSH_CONNECTION=141.142.192.225 40766 141.142.175.10 22
PE_TPSL_DEFAULT_GENCOMPILERS_GNU_sandybridge=8.2
PE_LIBSCI_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/libsci/18.12.1/@PRGENV@/@PE_LIBSCI_DEFAULT_GENCOMPS@/@PE_LIBSCI_DEFAULT_TARGET@/lib/pkgconfig
PE_GA_DEFAULT_FIXED_PRGENV=CRAY PGI INTEL
MODULESHOME=/opt/modules/3.2.10.5
PELOCAL_PRGENV=true
PE_PETSC_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/petsc/3.9.3.0/complex/@PRGENV@/@PE_PETSC_DEFAULT_GENCOMPS@/@PE_PETSC_DEFAULT_TARGET@/lib/pkgconfig
PE_MPICH_NV_LIBS_nvidia35=-lcudart
CRAY_CXX_IPA_LIBS_X86_64=/opt/cray/cce/8.7.7/cce/x86_64/lib/libcray-c++-rts.a
PKG_CONFIG_PATH=/sw/xe/darshan/3.1.3/darshan-3.1.3/lib/pkgconfig:/sw/EasyBuild/software/cURL/7.59.0/lib/pkgconfig:/sw/EasyBuild/software/OpenSSL/1.0.2m/lib/pkgconfig:/opt/cray/rca/1.0.0-2.0502.60530.1.63.gem/lib64/pkgconfig:/opt/cray/pmi/5.0.11/lib64/pkgconfig:/opt/cray/craype/2.5.16/pkg-config:/opt/cray/iobuf/2.0.8/lib/pkgconfig:/opt/cray/xpmem/0.1-2.0502.64982.7.26.gem/lib64/pkgconfig:/opt/cray/dmapp/7.0.1-1.0502.11080.8.74.gem/lib64/pkgconfig:/opt/cray/gni-headers/4.0-1.0502.10859.9.26.gem/lib64/pkgconfig:/opt/cray/ugni/6.0-1.0502.10863.8.28.gem/lib64/pkgconfig:/opt/cray/udreg/2.3.2-1.0502.10518.2.17.gem/lib64/pkgconfig:/opt/cray/alps/5.2.4-2.0502.9774.31.12.gem/lib64/pkgconfig:/opt/cray/atp/2.1.0/lib/pkgconfig
LESSOPEN=lessopen.sh %s
LIBSCI_BASE_DIR=/opt/cray/libsci/18.12.1
INCLUDE_PATH_AARCH64=/opt/cray/cce/8.7.7/cce/aarch64/include/craylibs
CRAY_BINUTILS_BIN_X86_64=/opt/cray/cce/8.7.7/binutils/x86_64/bin
SHLIB_PATH=/usr/local/globus-6.0/lib
ACLOCAL_PATH=/sw/EasyBuild/software/cURL/7.59.0/share/aclocal
PE_TPSL_64_DEFAULT_GENCOMPS_GNU_sandybridge=82
PE_MPICH_NV_LIBS_nvidia60=-lcudart
PE_LIBSCI_DEFAULT_PKGCONFIG_VARIABLES=PE_LIBSCI_DEFAULT_OMP_REQUIRES_@openmp@:PE_SCI_EXT_LIBPATH:PE_SCI_EXT_LIBNAME
LIBSCI_VERSION=18.12.1
INFOPATH=/usr/local/info:/usr/share/info:/usr/info
CRAY_CPU_TARGET=interlagos
PE_TPSL_64_DEFAULT_GENCOMPILERS_GNU_x86_64=8.2
PE_PGI_DEFAULT_FIXED_PKGCONFIG_PATH=/opt/cray/parallel-netcdf/1.8.1.4/PGI/17.10/lib/pkgconfig:/opt/cray/netcdf-hdf5parallel/4.4.1.1/PGI/15.3/lib/pkgconfig:/opt/cray/netcdf/4.4.1.1/PGI/15.3/lib/pkgconfig:/opt/cray/hdf5-parallel/1.10.0.1/PGI/15.3/lib/pkgconfig:/opt/cray/hdf5/1.10.0.1/PGI/15.3/lib/pkgconfig:/opt/cray/ga/5.3.0.9/PGI/17.10/lib/pkgconfig
PE_LIBSCI_GENCOMPILERS_INTEL_x86_64=16.0
PE_FFTW_DEFAULT_TARGET_broadwell=broadwell
CRAY_PRE_COMPILE_OPTS=-hnetwork=gemini
CRAY_ALPS_INCLUDE_OPTS=-I/opt/cray/alps/5.2.4-2.0502.9774.31.12.gem/include
PE_MPICH_GENCOMPS_PGI=153
PE_PAPI_DEFAULT_ACCELL_FAMILY_LIBS=
PE_MPICH_DEFAULT_GENCOMPILERS_PGI=15.3
PE_LIBSCI_REQUIRED_PRODUCTS=PE_MPICH
CRAY_XPMEM_INCLUDE_OPTS=-I/opt/cray/xpmem/0.1-2.0502.64982.7.26.gem/include
CRAY_UGNI_INCLUDE_OPTS=-I/opt/cray/ugni/6.0-1.0502.10863.8.28.gem/include
LMOD_DIR=/opt/xalt/0.7.6/sles11.3
PE_LIBSCI_GENCOMPS_GNU_x86_64=81 71 51
PE_LIBSCI_DEFAULT_GENCOMPILERS_GNU_x86_64=8.1 7.1 5.1
PE_PETSC_DEFAULT_GENCOMPILERS_INTEL_x86_64=16.0
PE_FFTW_DEFAULT_TARGET_x86_64=x86_64
ATP_HOME=/opt/cray/atp/2.1.0
LESSCLOSE=lessclose.sh %s %s
PE_SMA_DEFAULT_DIR_PGI_DEFAULT64=64
PE_PETSC_DEFAULT_GENCOMPILERS_INTEL_haswell=16.0
PE_PETSC_DEFAULT_GENCOMPILERS_GNU_interlagos=8.2 5.3
PE_PAPI_DEFAULT_ACCEL_LIBS=
PE_INTEL_DEFAULT_FIXED_PKGCONFIG_PATH=/opt/cray/parallel-netcdf/1.8.1.4/INTEL/18.0/lib/pkgconfig:/opt/cray/netcdf-hdf5parallel/4.4.1.1/INTEL/15.0/lib/pkgconfig:/opt/cray/netcdf/4.4.1.1/INTEL/15.0/lib/pkgconfig:/opt/cray/mpt/7.7.4/gni/mpich-intel/16.0/lib/pkgconfig:/opt/cray/hdf5-parallel/1.10.0.1/INTEL/15.0/lib/pkgconfig:/opt/cray/hdf5/1.10.0.1/INTEL/15.0/lib/pkgconfig:/opt/cray/ga/5.3.0.9/INTEL/18.0/lib/pkgconfig
PE_GA_DEFAULT_VOLATILE_PKGCONFIG_PATH=/opt/cray/ga/5.3.0.9/@PRGENV@/@PE_GA_DEFAULT_GENCOMPS@/lib/pkgconfig
PE_GA_DEFAULT_GENCOMPS_GNU=82 73 53
PE_FFTW_DEFAULT_TARGET_haswell=haswell
CRAYOS_VERSION=5.2.82
CC_X86_64=/opt/cray/cce/8.7.7/cce/x86_64
CRAY_LD_LIBRARY_PATH=/opt/cray/mpt/7.7.4/gni/mpich-cray/8.6/lib:/opt/cray/rca/1.0.0-2.0502.60530.1.63.gem/lib64:/opt/cray/pmi/5.0.11/lib64:/opt/cray/libsci/18.12.1/CRAY/8.6/x86_64/lib:/opt/cray/cce/8.7.7/cce/x86_64/lib:/opt/cray/xpmem/0.1-2.0502.64982.7.26.gem/lib64:/opt/cray/dmapp/7.0.1-1.0502.11080.8.74.gem/lib64:/opt/cray/ugni/6.0-1.0502.10863.8.28.gem/lib64:/opt/cray/udreg/2.3.2-1.0502.10518.2.17.gem/lib64:/opt/cray/alps/5.2.4-2.0502.9774.31.12.gem/lib64
G_BROKEN_FILENAMES=1
DARSHAN_LOGPATH=/projects/system/darshan/
EBVERSIONOPENSSL=1.0.2m
PE_PETSC_DEFAULT_GENCOMPS_INTEL_x86_64=160
PE_PETSC_DEFAULT_GENCOMPS_GNU_x86_64=82 53
PE_PETSC_DEFAULT_GENCOMPS_CRAY_haswell=86
PE_MPICH_DEFAULT_DIR_CRAY_DEFAULT64=64
JAVA_ROOT=/opt/java/jdk1.8.0_51
COLORTERM=1
BASH_FUNC_modimp_tabcomplete_off()=() {  export MODIMP_AVAILABLE_MODULES="";
 complete -r module;
 rm -f /tmp/.modimp_available_${USER}_*
}
BASH_FUNC_modimp_module_to_stdout_on()=() {  if [ -f $HOME/.no_modimp ]; then
 return;
 fi;
 if [ -f $HOME/.no_modimp_warning ]; then
 echo "The file $HOME/.no_modimp_warning exists; modimp commands will not load.";
 return;
 fi;
 function moduleraw () 
 { 
 eval `${MODULESHOME}/bin/modulecmd bash $*`
 };
 function module () 
 { 
 if [[ $1 == "purge" ]]; then
 echo "";
 echo "BEWARE: Running \"module purge\" puts your environment in an unreliable state.";
 echo "Doing so makes it difficult to debug problems or for support staff to help";
 echo "you. Please structure your build so that you don't have to do this.";
 echo "";
 fi;
 if [[ $1 == "PrgEnvLoad" ]]; then
 PRGMOD=`echo $LOADEDMODULES | tr ":" "\n" | grep PrgEnv`;
 if [[ $PRGMOD == "" ]]; then
 moduleraw load $2 $3 $4 $5 $6 2&gt;&amp;1;
 return;
 fi;
 moduleraw swap $PRGMOD $2 $3 $4 $5 $6 2&gt;&amp;1;
 return;
 fi;
 moduleraw $* 2&gt;&amp;1
 };
 export -f moduleraw;
 export -f module
}
BASH_FUNC_moduleraw()=() {  eval `${MODULESHOME}/bin/modulecmd bash $*`
}
BASH_FUNC_autocomplete_modules()=() {  subcommands_list="load:add:show:display:available:unload:rm:list:swap:switch:use:unuse:PrgEnvLoad";
 read -a command_line_array &lt;&lt;&lt; "$COMP_LINE";
 num_command_line_elements=${#command_line_array[@]};
 if [[ $num_command_line_elements -eq 1 ]]; then
 echo "load";
 echo "add";
 echo "show";
 echo "display";
 echo "available";
 echo "unload";
 echo "rm";
 echo "list";
 echo "swap";
 echo "switch";
 echo "use";
 echo "unuse";
 echo "PrgEnvLoad";
 exit;
 fi;
 module_sub_command=${command_line_array[1]};
 being_completed=$2;
 being_completed_length=${#being_completed};
 loaded_modules_array=$(echo $LOADEDMODULES | tr ":" "\n");
 if [ $MODIMP_KEEP_MODULE_LIST_IN_ENV != "yes" ]; then
 dated_modulefile_name="/tmp/.modimp_available_${USER}_`date +%Y_%m_%d`";
 if [ ! -f ${dated_modulefile_name} ]; then
 autocomplete_modules_setup;
 fi;
 read -r MODIMP_AVAILABLE_MODULES &lt; ${dated_modulefile_name};
 fi;
 available_modules_array=$(echo $MODIMP_AVAILABLE_MODULES | tr ":" "\n");
 case "$module_sub_command" in 
 load | add | show | display | available | avail)
 possible_completions_array=("${available_modules_array[@]}")
 ;;
 unload | rm | list)
 possible_completions_array=("${loaded_modules_arraCloning into 'SWTools-BWCI'...
y[@]}")
 ;;
 PrgEnvLoad)
 PrgEnv_array=$(echo $MODIMP_AVAILABLE_MODULES | tr ":" "\n" | grep PrgEnv);
 possible_completions_array=("${PrgEnv_array[@]}")
 ;;
 swap | switch)
 case "$num_command_line_elements" in 
 2)
 possible_completions_array=("${loaded_modules_array[@]}")
 ;;
 4)
 possible_completions_array=("${available_modules_array[@]}")
 ;;
 3)
 if [[ $being_completed_length -eq 0 ]]; then
 initial_completions_array=("${available_modules_array[@]}");
 raw_module_to_be_swapped=${command_line_array[2]};
 position_of_slash=$(echo $raw_module_to_be_swapped | grep -b -o "/" | awk 'BEGIN {FS=":"}{print $1}');
 second_completions_array="";
 if [[ $position_of_slash -gt 0 ]]; then
 base_module_length=$position_of_slash;
 else
 base_module_length=${#raw_module_to_be_swapped};
 fi;
 module_name_prefix=${raw_module_to_be_swapped:0:6};
 if [[ $module_name_prefix == "PrgEnv" ]]; then
 base_module_length=6;
 fi;
 base_module_to_be_swapped=${raw_module_to_be_swapped:0:base_module_length};
 version_length=${#raw_module_to_be_swapped}-position_of_slash-1;
 for comp in $initial_completions_array;
 do
 match_string=${comp:0:base_module_length};
 if [ $match_string == $base_module_to_be_swapped ]; then
 second_completions_array+=$comp;
 second_completions_array+=":";
 fi;
 done;
 possible_completions_array=$(echo $second_completions_array | tr ":" "\n");
 else
 possible_completions_array=("${loaded_modules_array[@]}");
 fi
 ;;
 esac
 ;;
 use | unuse)
 dir_completions=(`ls -1 -d -p ${being_completed}* 2&gt;/dev/null`);
 num_possible=${#dir_completions[@]};
 blah="\t";
 if (( num_possible == 1 )); then
 echo ${dir_completions[0]};
 echo ${dir_completions[0]}$blah;
 else
 for item in "${dir_completions[@]}";
 do
 echo $item;
 done;
 fi;
 return
 ;;
 *)
 if [[ $3 == "module" ]]; then
 possible_completions_array=$(echo $subcommands_list | tr ":" "\n");
 fi
 ;;
 esac;
 if [[ $being_completed_length -eq 0 ]]; then
 for x in $possible_completions_array;
 do
 echo "$x";
 done;
 else
 for x in $possible_completions_array;
 do
 match_string=${x:0:being_completed_length};
 if [ $match_string == $being_completed ]; then
 echo "$x";
 fi;
 cray_prepended_length=$(($being_completed_length+5));
 cray_prepended_match_string=${x:0:cray_prepended_length};
 cray_prepended_being_completed="cray-";
 cray_prepended_being_completed+=$being_completed;
 if [ $cray_prepended_match_string == $cray_prepended_being_completed ]; then
 echo "$x";
 fi;
 craype_prepended_length=$(($being_completed_length+7));
 craype_prepended_match_string=${x:0:craype_prepended_length};
 craype_prepended_being_completed="craype-";
 craype_prepended_being_completed+=$being_completed;
 if [ $craype_prepended_match_string == $craype_prepended_being_completed ]; then
 echo "$x";
 fi;
 xt_prepended_length=$(($being_completed_length+3));
 xt_prepended_match_string=${x:0:xt_prepended_length};
 xt_prepended_being_completed="xt-";
 xt_prepended_being_completed+=$being_completed;
 if [[ $xt_prepended_match_string == $xt_prepended_being_completed ]]; then
 echo "$x";
 fi;
 done;
 fi
}
BASH_FUNC_modimp_show_all_if_ambiguous_on()=() {  if [ -f $HOME/.no_modimp ]; then
 return;
 fi;
 if [ -f $HOME/.no_modimp_warning ]; then
 echo "The file $HOME/.no_modimp_warning exists; modimp commands will not load.";
 return;
 fi;
 bind 'set show-all-if-ambiguous on'
}
BASH_FUNC_modimp_tabcomplete_on()=() {  if [ -f $HOME/.no_modimp ]; then
 return;
 fi;
 if [ -f $HOME/.no_modimp_warning ]; then
 echo "The file $HOME/.no_modimp_warning exists; modimp commands will not load.";
 return;
 fi;
 autocomplete_modules_setup;
 complete -C autocomplete_modules module
}
BASH_FUNC_module()=() {  if [[ $1 == "purge" ]]; then
 echo "";
 echo "BEWARE: Running \"module purge\" puts your environment in an unreliable state.";
 echo "Doing so makes it difficult to debug problems or for support staff to help";
 echo "you. Please structure your build so that you don't have to do this.";
 echo "";
 fi;
 if [[ $1 == "PrgEnvLoad" ]]; then
 PRGMOD=`echo $LOADEDMODULES | tr ":" "\n" | grep PrgEnv`;
 if [[ $PRGMOD == "" ]]; then
 moduleraw load $2 $3 $4 $5 $6 2&gt;&amp;1;
 return;
 fi;
 moduleraw swap $PRGMOD $2 $3 $4 $5 $6 2&gt;&amp;1;
 return;
 fi;
 moduleraw $* 2&gt;&amp;1
}
BASH_FUNC_autocomplete_modules_setup()=() {  if [ $MODIMP_KEEP_MODULE_LIST_IN_ENV != "yes" ]; then
 dated_modulefile_name="/tmp/.modimp_available_${USER}_`date +%Y_%m_%d`";
 if [ ! -e ${dated_modulefile_name} ]; then
 rm -f /tmp/.modimp_available_${USER}_*;
 fi;
 fi;
 MODIMP_AVAILABLE_MODULES="";
 mod_dir_list=$(echo $MODULEPATH | tr ":" "\n");
 for moddir in $mod_dir_list;
 do
 directory_name_length=${#moddir};
 file_list=$(find $moddir 2&gt; /dev/null);
 for filename in $file_list;
 do
 modname_position=$(($directory_name_length+1));
 modname_and_version_length=$((${#filename}-$modname_position));
 modulename_and_version=${filename:$modname_position:$modname_and_version_length};
 modname_leading_character=${modulename_and_version:0:1};
 if [[ $modname_leading_character == "." ]]; then
 continue;
 fi;
 if [[ $modulename_and_version =~ \/\. ]]; then
 continue;
 fi;
 MODIMP_AVAILABLE_MODULES+=$modulename_and_version;
 MODIMP_AVAILABLE_MODULES+=":";
 done;
 done;
 if [ $MODIMP_KEEP_MODULE_LIST_IN_ENV != "yes" ]; then
 echo $MODIMP_AVAILABLE_MODULES &gt; ${dated_modulefile_name};
 export MODIMP_AVAILABLE_MODULES="";
 else
 export MODIMP_AVAILABLE_MODULES;
 fi
}
BASH_FUNC_modimp_show_all_if_ambiguous_off()=() {  bind 'set show-all-if-ambiguous off'
}
BASH_FUNC_modimp_module_to_stdout_off()=() {  function module () 
 { 
 if [[ $1 == "purge" ]]; then
 echo "";
 echo "BEWARE: Running \"module purge\" puts your environment in an unreliable state.";
 echo "Doing so makes it difficult to debug problems or for support staff to help";
 echo "you. Please structure your build so that you don't have to do this.";
 echo "";
 fi;
 eval `${MODULESHOME}/bin/modulecmd bash $*`
 };
 export -f module
}
BASH_FUNC_modimp_resync()=() {  rm -f /dev/shm/.modimp_available_${USER}_*;
 autocomplete_modules_setup
}
_=/usr/bin/env
swbuild -s -a lammps -v 15May15 -b cle5.2_gnu5.1.0
# clear out old installation to prevent potential libtool chmod 
# commands from failing when reinstalled by another person
rm -rf bin lib include doc share man etc libexec info

#clear out status file since re-making
rm -f status
rm -rf $SRCDIR

tar -xf /sw/sources/${PACKAGE}/${VERSION}/${PACKAGE}_stable.tar.gz
cd $SRCDIR

cd src/MAKE

cat &gt; Makefile.xc30 &lt;&lt; EOF
SHELL = /bin/sh
.SUFFIXES: .cpp .d
CC =            CC
CCFLAGS =       -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64
SHFLAGS =       -fPIC
DEPFLAGS =      -M
LINK =          CC
LINKFLAGS =     -O
LIB =           -lquadmath
SIZE =          size
ARCHIVE =       ar
ARFLAGS =       -rc
SHLIBFLAGS =    -shared
LMP_INC =       -DLAMMPS_GZIP
MPI_INC =       -DMPICH_SKIP_MPICXX
MPI_PATH =
MPI_LIB =
FFT_INC =       -DFFT_FFTW3
FFT_PATH =
FFT_LIB = 
JPG_INC =
JPG_PATH =
JPG_LIB = 
EOF

tail -n 46 Makefile.mpi &gt;&gt; Makefile.xc30
cd ..

# Adding all packages
make yes-all
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package asphere
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package body
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package class2
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package colloid
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package coreshell
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package dipole
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package fld
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package gpu
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package granular
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package kim
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package kokkos
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package kspace
  updating package CORESHELL
  updating package GPU
  updating package KOKKOS
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package manybody
  updating package GPU
  updating package KOKKOS
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package mc
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package meam
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package misc
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package molecule
  updating package GPU
  updating package KOKKOS
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package mpiio
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package opt
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package peri
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package poems
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package python
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package qeq
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package reax
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package replica
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package rigid
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package shock
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package snap
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package srd
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package voronoi
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package xtc
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-atc
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-awpmd
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-cg-cmm
  updating package GPU
  updating src/pair_lj_sdk_coul_long_gpu.cpp
  updating src/pair_lj_sdk_coul_long_gpu.h
  updating src/pair_lj_sdk_gpu.cpp
  updating src/pair_lj_sdk_gpu.h
  updating package KOKKOS
  updating src/pair_lj_sdk_kokkos.cpp
  updating src/pair_lj_sdk_kokkos.h
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-colvars
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-cuda
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-eff
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-fep
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-intel
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-lb
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-misc
  updating package GPU
  updating src/pair_lj_sf_dipole_sf_gpu.cpp
  updating src/pair_lj_sf_dipole_sf_gpu.h
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-molfile
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-omp
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-phonon
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-qmmm
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-quip
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-reaxc
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
Installing package user-sph
make[1]: Leaving directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src'
make no-gpu
Uninstalling package gpu
make no-kim
Uninstalling package kim
make no-voronoi
Uninstalling package voronoi
make no-user-atc
Uninstalling package user-atc
make no-user-awpmd
Uninstalling package user-awpmd
make no-user-cuda
Uninstalling package user-cuda
make no-user-molfile
Uninstalling package user-molfile
make no-user-qmmm
Uninstalling package user-qmmm
make no-user-quip
Uninstalling package user-quip
make no-python

Uninstalling package python
make package-status
Installed YES: package ASPHERE
Installed YES: package BODY
Installed YES: package CLASS2
Installed YES: package COLLOID
Installed YES: package CORESHELL
Installed YES: package DIPOLE
Installed YES: package FLD
Installed  NO: package GPU
Installed YES: package GRANULAR
Installed  NO: package KIM
Installed YES: package KOKKOS
Installed YES: package KSPACE
Installed YES: package MANYBODY
Installed YES: package MC
Installed YES: package MEAM
Installed YES: package MISC
Installed YES: package MOLECULE
Installed YES: package MPIIO
Installed YES: package OPT
Installed YES: package PERI
Installed YES: package POEMS
Installed  NO: package PYTHON
Installed YES: package QEQ
Installed YES: package REAX
Installed YES: package REPLICA
Installed YES: package RIGID
Installed YES: package SHOCK
Installed YES: package SNAP
Installed YES: package SRD
Installed  NO: package VORONOI
Installed YES: package XTC

Installed  NO: package USER-ATC
Installed  NO: package USER-AWPMD
Installed YES: package USER-CG-CMM
Installed YES: package USER-COLVARS
Installed  NO: package USER-CUDA
Installed YES: package USER-EFF
Installed YES: package USER-FEP
Installed YES: package USER-INTEL
Installed YES: package USER-LB
Installed YES: package USER-MISC
Installed  NO: package USER-MOLFILE
Installed YES: package USER-OMP
Installed YES: package USER-PHONON
Installed  NO: package USER-QMMM
Installed  NO: package USER-QUIP
Installed YES: package USER-REAXC
Installed YES: package USER-SPH
cd ..

cd lib/meam
make -f Makefile.gfortran

gfortran -O -fPIC -fno-second-underscore -c meam_data.F
gfortran -O -fPIC -fno-second-underscore -c meam_setup_done.F
gfortran -O -fPIC -fno-second-underscore -c meam_setup_global.F
gfortran -O -fPIC -fno-second-underscore -c meam_setup_param.F
gfortran -O -fPIC -fno-second-underscore -c meam_dens_init.F
gfortran -O -fPIC -fno-second-underscore -c meam_dens_final.F
gfortran -O -fPIC -fno-second-underscore -c meam_force.F
gfortran -O -fPIC -fno-second-underscore -c meam_cleanup.F
ar rv libmeam.a meam_data.o meam_setup_done.o meam_setup_global.o meam_setup_param.o meam_dens_init.o meam_dens_final.o meam_force.o meam_cleanup.o
ar: creating libmeam.a
a - meam_data.o
a - meam_setup_done.o
a - meam_setup_global.o
a - meam_setup_param.o
a - meam_dens_init.o
a - meam_dens_final.o
a - meam_force.o
a - meam_cleanup.o
cd ../reax
make -f Makefile.gfortran

gfortran -O -fPIC -fno-second-underscore -c reax_connect.F
gfortran -O -fPIC -fno-second-underscore -c reax_inout.F
gfortran -O -fPIC -fno-second-underscore -c reax_lammps.F
gfortran -O -fPIC -fno-second-underscore -c reax_poten.F
gfortran -O -fPIC -fno-second-underscore -c reax_reac.F
gfortran -O -fPIC -fno-second-underscore -c reax_charges.F
ar rv libreax.a reax_connect.o reax_inout.o reax_lammps.o reax_poten.o reax_reac.o reax_charges.o
ar: creating libreax.a
a - reax_connect.o
a - reax_inout.o
a - reax_lammps.o
a - reax_poten.o
a - reax_reac.o
a - reax_charges.o
cd ../poems
make -f Makefile.g++

g++ -O -g -fPIC -Wall  -c workspace.cpp
g++ -O -g -fPIC -Wall  -c system.cpp
g++ -O -g -fPIC -Wall  -c poemsobject.cpp
poemsobject.cpp: In constructor 'POEMSObject::POEMSObject()':
poemsobject.cpp:24:23: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
   ChangeName("unnamed");
                       ^
g++ -O -g -fPIC -Wall  -c body.cpp
g++ -O -g -fPIC -Wall  -c rigidbody.cpp
g++ -O -g -fPIC -Wall  -c particle.cpp
g++ -O -g -fPIC -Wall  -c inertialframe.cpp
g++ -O -g -fPIC -Wall  -c joint.cpp
g++ -O -g -fPIC -Wall  -c revolutejoint.cpp
g++ -O -g -fPIC -Wall  -c prismaticjoint.cpp
g++ -O -g -fPIC -Wall  -c sphericaljoint.cpp
g++ -O -g -fPIC -Wall  -c freebodyjoint.cpp
g++ -O -g -fPIC -Wall  -c body23joint.cpp
g++ -O -g -fPIC -Wall  -c mixedjoint.cpp
g++ -O -g -fPIC -Wall  -c point.cpp
g++ -O -g -fPIC -Wall  -c fixedpoint.cpp
g++ -O -g -fPIC -Wall  -c solver.cpp
g++ -O -g -fPIC -Wall  -c onsolver.cpp
g++ -O -g -fPIC -Wall  -c onfunctions.cpp
g++ -O -g -fPIC -Wall  -c onbody.cpp
g++ -O -g -fPIC -Wall  -c virtualmatrix.cpp
g++ -O -g -fPIC -Wall  -c matrix.cpp
g++ -O -g -fPIC -Wall  -c matrixfun.cpp
g++ -O -g -fPIC -Wall  -c mat3x3.cpp
g++ -O -g -fPIC -Wall  -c virtualcolmatrix.cpp
g++ -O -g -fPIC -Wall  -c colmatrix.cpp
g++ -O -g -fPIC -Wall  -c vect3.cpp
g++ -O -g -fPIC -Wall  -c virtualrowmatrix.cpp
g++ -O -g -fPIC -Wall  -c rowmatrix.cpp
g++ -O -g -fPIC -Wall  -c mat6x6.cpp
g++ -O -g -fPIC -Wall  -c vect6.cpp
g++ -O -g -fPIC -Wall  -c fastmatrixops.cpp
g++ -O -g -fPIC -Wall  -c colmatmap.cpp
g++ -O -g -fPIC -Wall  -c eulerparameters.cpp
g++ -O -g -fPIC -Wall  -c vect4.cpp
g++ -O -g -fPIC -Wall  -c norm.cpp
g++ -O -g -fPIC -Wall  -c mat4x4.cpp
g++ -O -g -fPIC -Wall  -c poemstreenode.cpp
In file included from poemstreenode.cpp:18:0:
poemstreenode.h: In constructor 'TreeNode::TreeNode(const int&amp;, TreeNode*, TreeNode*, int)':
poemstreenode.h:36:6: warning: 'TreeNode::data' will be initialized after [-Wreorder]
  int data;
      ^
poemstreenode.h:32:12: warning:   'TreeNode* TreeNode::left' [-Wreorder]
  TreeNode *left;
            ^
poemstreenode.cpp:22:1: warning:   when initialized here [-Wreorder]
 TreeNode::TreeNode (const int &amp; item, TreeNode *lptr,TreeNode *rptr,
 ^
ar rv libpoems.a workspace.o system.o poemsobject.o body.o rigidbody.o particle.o inertialframe.o joint.o revolutejoint.o prismaticjoint.o sphericaljoint.o freebodyjoint.o body23joint.o mixedjoint.o point.o fixedpoint.o solver.o onsolver.o onfunctions.o onbody.o virtualmatrix.o matrix.o matrixfun.o mat3x3.o virtualcolmatrix.o colmatrix.o vect3.o virtualrowmatrix.o rowmatrix.o mat6x6.o vect6.o fastmatrixops.o colmatmap.o eulerparameters.o vect4.o norm.o mat4x4.o poemstreenode.o
ar: creating libpoems.a
a - workspace.o
a - system.o
a - poemsobject.o
a - body.o
a - rigidbody.o
a - particle.o
a - inertialframe.o
a - joint.o
a - revolutejoint.o
a - prismaticjoint.o
a - sphericaljoint.o
a - freebodyjoint.o
a - body23joint.o
a - mixedjoint.o
a - point.o
a - fixedpoint.o
a - solver.o
a - onsolver.o
a - onfunctions.o
a - onbody.o
a - virtualmatrix.o
a - matrix.o
a - matrixfun.o
a - mat3x3.o
a - virtualcolmatrix.o
a - colmatrix.o
a - vect3.o
a - virtualrowmatrix.o
a - rowmatrix.o
a - mat6x6.o
a - vect6.o
a - fastmatrixops.o
a - colmatmap.o
a - eulerparameters.o
a - vect4.o
a - norm.o
a - mat4x4.o
a - poemstreenode.o
cd ../colvars
make -f Makefile.g++

g++ -O2 -g -fPIC -funroll-loops  -c colvaratoms.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarbias_abf.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarbias_alb.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarbias.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarbias_histogram.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarbias_meta.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarbias_restraint.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarcomp_angles.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarcomp_coordnums.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarcomp.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarcomp_distances.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarcomp_protein.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarcomp_rotations.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvar.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvargrid.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarmodule.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarparse.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarscript.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvartypes.cpp
g++ -O2 -g -fPIC -funroll-loops  -c colvarvalue.cpp
ar rv libcolvars.a colvaratoms.o colvarbias_abf.o colvarbias_alb.o colvarbias.o colvarbias_histogram.o colvarbias_meta.o colvarbias_restraint.o colvarcomp_angles.o colvarcomp_coordnums.o colvarcomp.o colvarcomp_distances.o colvarcomp_protein.o colvarcomp_rotations.o colvar.o colvargrid.o colvarmodule.o colvarparse.o colvarscript.o colvartypes.o colvarvalue.o
ar: creating libcolvars.a
a - colvaratoms.o
a - colvarbias_abf.o
a - colvarbias_alb.o
a - colvarbias.o
a - colvarbias_histogram.o
a - colvarbias_meta.o
a - colvarbias_restraint.o
a - colvarcomp_angles.o
a - colvarcomp_coordnums.o
a - colvarcomp.o
a - colvarcomp_distances.o
a - colvarcomp_protein.o
a - colvarcomp_rotations.o
a - colvar.o
a - colvargrid.o
a - colvarmodule.o
a - colvarparse.o
a - colvarscript.o
a - colvartypes.o
a - colvarvalue.o
cd ../../src

# Building lammps

make xc30
make[1]: Entering directory `/mnt/abc/scratch/system/bwjenkins/tests/lammps/15May15/cle5.2_gnu5.1.0/lammps-15May15/src/Obj_xc30'
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../xdr_compat.cpp &gt; xdr_compat.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../write_restart.cpp &gt; write_restart.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../write_dump.cpp &gt; write_dump.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../write_data.cpp &gt; write_data.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../verlet_split_intel.cpp &gt; verlet_split_intel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../verlet_split.cpp &gt; verlet_split.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../verlet_kokkos.cpp &gt; verlet_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../verlet_intel.cpp &gt; verlet_intel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../verlet.cpp &gt; verlet.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../velocity.cpp &gt; velocity.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../variable.cpp &gt; variable.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../update.cpp &gt; update.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../universe.cpp &gt; universe.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../timer.cpp &gt; timer.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../thr_omp.cpp &gt; thr_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../thr_data.cpp &gt; thr_data.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../thermo.cpp &gt; thermo.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../temper.cpp &gt; temper.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../tad.cpp &gt; tad.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../special.cpp &gt; special.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../sna.cpp &gt; sna.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../set.cpp &gt; set.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../run.cpp &gt; run.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../restart_mpiio.cpp &gt; restart_mpiio.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../respa_omp.cpp &gt; respa_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../respa.cpp &gt; respa.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../rerun.cpp &gt; rerun.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../replicate.cpp &gt; replicate.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../remap_wrap.cpp &gt; remap_wrap.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../remap.cpp &gt; remap.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region_union.cpp &gt; region_union.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region_sphere.cpp &gt; region_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region_prism.cpp &gt; region_prism.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region_plane.cpp &gt; region_plane.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region_intersect.cpp &gt; region_intersect.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region_cylinder.cpp &gt; region_cylinder.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region.cpp &gt; region.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region_cone.cpp &gt; region_cone.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../region_block.cpp &gt; region_block.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_vector.cpp &gt; reaxc_vector.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_valence_angles.cpp &gt; reaxc_valence_angles.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_traj.cpp &gt; reaxc_traj.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_torsion_angles.cpp &gt; reaxc_torsion_angles.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_tool_box.cpp &gt; reaxc_tool_box.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_system_props.cpp &gt; reaxc_system_props.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_reset_tools.cpp &gt; reaxc_reset_tools.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_nonbonded.cpp &gt; reaxc_nonbonded.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_multi_body.cpp &gt; reaxc_multi_body.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_lookup.cpp &gt; reaxc_lookup.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_list.cpp &gt; reaxc_list.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_io_tools.cpp &gt; reaxc_io_tools.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_init_md.cpp &gt; reaxc_init_md.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_hydrogen_bonds.cpp &gt; reaxc_hydrogen_bonds.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_forces.cpp &gt; reaxc_forces.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_ffield.cpp &gt; reaxc_ffield.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_control.cpp &gt; reaxc_control.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_bonds.cpp &gt; reaxc_bonds.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_bond_orders.cpp &gt; reaxc_bond_orders.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reaxc_allocate.cpp &gt; reaxc_allocate.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../read_restart.cpp &gt; read_restart.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reader_xyz.cpp &gt; reader_xyz.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reader_native.cpp &gt; reader_native.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../reader.cpp &gt; reader.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../read_dump.cpp &gt; read_dump.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../read_data.cpp &gt; read_data.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../rcb.cpp &gt; rcb.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../random_park.cpp &gt; random_park.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../random_mars.cpp &gt; random_mars.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../procmap.cpp &gt; procmap.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../prd.cpp &gt; prd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_tip4p_omp.cpp &gt; pppm_tip4p_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_tip4p.cpp &gt; pppm_tip4p.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_stagger.cpp &gt; pppm_stagger.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_omp.cpp &gt; pppm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_disp_tip4p_omp.cpp &gt; pppm_disp_tip4p_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_disp_tip4p.cpp &gt; pppm_disp_tip4p.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_disp_omp.cpp &gt; pppm_disp_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_disp.cpp &gt; pppm_disp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm.cpp &gt; pppm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_cg_omp.cpp &gt; pppm_cg_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pppm_cg.cpp &gt; pppm_cg.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_zbl_omp.cpp &gt; pair_zbl_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_zbl.cpp &gt; pair_zbl.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_yukawa_omp.cpp &gt; pair_yukawa_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_yukawa.cpp &gt; pair_yukawa.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_yukawa_colloid_omp.cpp &gt; pair_yukawa_colloid_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_yukawa_colloid.cpp &gt; pair_yukawa_colloid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tri_lj_omp.cpp &gt; pair_tri_lj_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tri_lj.cpp &gt; pair_tri_lj.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tip4p_long_soft_omp.cpp &gt; pair_tip4p_long_soft_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tip4p_long_soft.cpp &gt; pair_tip4p_long_soft.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tip4p_long_omp.cpp &gt; pair_tip4p_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tip4p_long.cpp &gt; pair_tip4p_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tip4p_cut_omp.cpp &gt; pair_tip4p_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tip4p_cut.cpp &gt; pair_tip4p_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_zbl_omp.cpp &gt; pair_tersoff_zbl_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_zbl_kokkos.cpp &gt; pair_tersoff_zbl_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_zbl.cpp &gt; pair_tersoff_zbl.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_table_omp.cpp &gt; pair_tersoff_table_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_table.cpp &gt; pair_tersoff_table.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_omp.cpp &gt; pair_tersoff_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_mod_omp.cpp &gt; pair_tersoff_mod_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_mod_kokkos.cpp &gt; pair_tersoff_mod_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_mod.cpp &gt; pair_tersoff_mod.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff_kokkos.cpp &gt; pair_tersoff_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_tersoff.cpp &gt; pair_tersoff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_table_omp.cpp &gt; pair_table_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_table_kokkos.cpp &gt; pair_table_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_table.cpp &gt; pair_table.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sw_omp.cpp &gt; pair_sw_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sw_kokkos.cpp &gt; pair_sw_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sw_intel.cpp &gt; pair_sw_intel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sw.cpp &gt; pair_sw.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_srp.cpp &gt; pair_srp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sph_taitwater_morris.cpp &gt; pair_sph_taitwater_morris.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sph_taitwater.cpp &gt; pair_sph_taitwater.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sph_rhosum.cpp &gt; pair_sph_rhosum.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sph_lj.cpp &gt; pair_sph_lj.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sph_idealgas.cpp &gt; pair_sph_idealgas.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_sph_heatconduction.cpp &gt; pair_sph_heatconduction.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_soft_omp.cpp &gt; pair_soft_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_soft.cpp &gt; pair_soft.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_snap.cpp &gt; pair_snap.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_resquared_omp.cpp &gt; pair_resquared_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_resquared.cpp &gt; pair_resquared.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_rebo_omp.cpp &gt; pair_rebo_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_rebo.cpp &gt; pair_rebo.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_reax.cpp &gt; pair_reax.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_reax_c.cpp &gt; pair_reax_c.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_peri_ves.cpp &gt; pair_peri_ves.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_peri_pmb_omp.cpp &gt; pair_peri_pmb_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_peri_pmb.cpp &gt; pair_peri_pmb.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_peri_lps_omp.cpp &gt; pair_peri_lps_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_peri_lps.cpp &gt; pair_peri_lps.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_peri_eps.cpp &gt; pair_peri_eps.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_nm_cut_omp.cpp &gt; pair_nm_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_nm_cut.cpp &gt; pair_nm_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_nm_cut_coul_long_omp.cpp &gt; pair_nm_cut_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_nm_cut_coul_long.cpp &gt; pair_nm_cut_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_nm_cut_coul_cut_omp.cpp &gt; pair_nm_cut_coul_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_nm_cut_coul_cut.cpp &gt; pair_nm_cut_coul_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_nb3b_harmonic_omp.cpp &gt; pair_nb3b_harmonic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_nb3b_harmonic.cpp &gt; pair_nb3b_harmonic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_morse_opt.cpp &gt; pair_morse_opt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_morse_omp.cpp &gt; pair_morse_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_morse.cpp &gt; pair_morse.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_mie_cut.cpp &gt; pair_mie_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_meam_sw_spline.cpp &gt; pair_meam_sw_spline.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_meam_spline_omp.cpp &gt; pair_meam_spline_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_meam_spline.cpp &gt; pair_meam_spline.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_meam.cpp &gt; pair_meam.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lubricateU_poly.cpp &gt; pair_lubricateU_poly.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lubricateU.cpp &gt; pair_lubricateU.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lubricate_poly_omp.cpp &gt; pair_lubricate_poly_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lubricate_poly.cpp &gt; pair_lubricate_poly.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lubricate_omp.cpp &gt; pair_lubricate_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lubricate.cpp &gt; pair_lubricate.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_smooth_omp.cpp &gt; pair_lj_smooth_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_smooth_linear_omp.cpp &gt; pair_lj_smooth_linear_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_smooth_linear.cpp &gt; pair_lj_smooth_linear.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_smooth.cpp &gt; pair_lj_smooth.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sf_omp.cpp &gt; pair_lj_sf_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sf_dipole_sf_omp.cpp &gt; pair_lj_sf_dipole_sf_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sf_dipole_sf.cpp &gt; pair_lj_sf_dipole_sf.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sf.cpp &gt; pair_lj_sf.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sdk_omp.cpp &gt; pair_lj_sdk_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sdk_kokkos.cpp &gt; pair_lj_sdk_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sdk.cpp &gt; pair_lj_sdk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sdk_coul_msm_omp.cpp &gt; pair_lj_sdk_coul_msm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sdk_coul_msm.cpp &gt; pair_lj_sdk_coul_msm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sdk_coul_long_omp.cpp &gt; pair_lj_sdk_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_sdk_coul_long.cpp &gt; pair_lj_sdk_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_long_tip4p_long_omp.cpp &gt; pair_lj_long_tip4p_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_long_tip4p_long.cpp &gt; pair_lj_long_tip4p_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_long_dipole_long.cpp &gt; pair_lj_long_dipole_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_long_coul_long_opt.cpp &gt; pair_lj_long_coul_long_opt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_long_coul_long_omp.cpp &gt; pair_lj_long_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_long_coul_long.cpp &gt; pair_lj_long_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_gromacs_omp.cpp &gt; pair_lj_gromacs_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_gromacs_kokkos.cpp &gt; pair_lj_gromacs_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_gromacs.cpp &gt; pair_lj_gromacs.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_gromacs_coul_gromacs_omp.cpp &gt; pair_lj_gromacs_coul_gromacs_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_gromacs_coul_gromacs_kokkos.cpp &gt; pair_lj_gromacs_coul_gromacs_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_gromacs_coul_gromacs.cpp &gt; pair_lj_gromacs_coul_gromacs.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_expand_omp.cpp &gt; pair_lj_expand_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_expand_kokkos.cpp &gt; pair_lj_expand_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_expand.cpp &gt; pair_lj_expand.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_tip4p_long_soft_omp.cpp &gt; pair_lj_cut_tip4p_long_soft_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_tip4p_long_soft.cpp &gt; pair_lj_cut_tip4p_long_soft.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_tip4p_long_opt.cpp &gt; pair_lj_cut_tip4p_long_opt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_tip4p_long_omp.cpp &gt; pair_lj_cut_tip4p_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_tip4p_long.cpp &gt; pair_lj_cut_tip4p_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_tip4p_cut_omp.cpp &gt; pair_lj_cut_tip4p_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_tip4p_cut.cpp &gt; pair_lj_cut_tip4p_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_soft_omp.cpp &gt; pair_lj_cut_soft_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_soft.cpp &gt; pair_lj_cut_soft.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_opt.cpp &gt; pair_lj_cut_opt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_omp.cpp &gt; pair_lj_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_kokkos.cpp &gt; pair_lj_cut_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_intel.cpp &gt; pair_lj_cut_intel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_dipole_long.cpp &gt; pair_lj_cut_dipole_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_cut_dipole_cut_omp.cpp &gt; pair_lj_cut_dipole_cut_omp.d
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CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_class2_kokkos.cpp &gt; pair_lj_class2_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_class2.cpp &gt; pair_lj_class2.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_class2_coul_long_omp.cpp &gt; pair_lj_class2_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_class2_coul_long_kokkos.cpp &gt; pair_lj_class2_coul_long_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_class2_coul_long.cpp &gt; pair_lj_class2_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_class2_coul_cut_omp.cpp &gt; pair_lj_class2_coul_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_class2_coul_cut_kokkos.cpp &gt; pair_lj_class2_coul_cut_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_class2_coul_cut.cpp &gt; pair_lj_class2_coul_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_msm_omp.cpp &gt; pair_lj_charmm_coul_msm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_msm.cpp &gt; pair_lj_charmm_coul_msm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_long_soft_omp.cpp &gt; pair_lj_charmm_coul_long_soft_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_long_soft.cpp &gt; pair_lj_charmm_coul_long_soft.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_long_opt.cpp &gt; pair_lj_charmm_coul_long_opt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_long_omp.cpp &gt; pair_lj_charmm_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_long_kokkos.cpp &gt; pair_lj_charmm_coul_long_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_long_intel.cpp &gt; pair_lj_charmm_coul_long_intel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_long.cpp &gt; pair_lj_charmm_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_charmm_omp.cpp &gt; pair_lj_charmm_coul_charmm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_charmm_kokkos.cpp &gt; pair_lj_charmm_coul_charmm_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_charmm_implicit_omp.cpp &gt; pair_lj_charmm_coul_charmm_implicit_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_charmm_implicit_kokkos.cpp &gt; pair_lj_charmm_coul_charmm_implicit_kokkos.d
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CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj_charmm_coul_charmm.cpp &gt; pair_lj_charmm_coul_charmm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj96_cut_omp.cpp &gt; pair_lj96_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lj96_cut.cpp &gt; pair_lj96_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_list.cpp &gt; pair_list.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_line_lj_omp.cpp &gt; pair_line_lj_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_line_lj.cpp &gt; pair_line_lj.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_lcbop.cpp &gt; pair_lcbop.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_hybrid_overlay.cpp &gt; pair_hybrid_overlay.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_hybrid.cpp &gt; pair_hybrid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_hbond_dreiding_morse_omp.cpp &gt; pair_hbond_dreiding_morse_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_hbond_dreiding_morse.cpp &gt; pair_hbond_dreiding_morse.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_hbond_dreiding_lj_omp.cpp &gt; pair_hbond_dreiding_lj_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_hbond_dreiding_lj.cpp &gt; pair_hbond_dreiding_lj.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gran_hooke_omp.cpp &gt; pair_gran_hooke_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gran_hooke_history_omp.cpp &gt; pair_gran_hooke_history_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gran_hooke_history.cpp &gt; pair_gran_hooke_history.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gran_hooke.cpp &gt; pair_gran_hooke.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gran_hertz_history_omp.cpp &gt; pair_gran_hertz_history_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gran_hertz_history.cpp &gt; pair_gran_hertz_history.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gayberne_omp.cpp &gt; pair_gayberne_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gayberne_intel.cpp &gt; pair_gayberne_intel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gayberne.cpp &gt; pair_gayberne.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gauss_omp.cpp &gt; pair_gauss_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gauss_cut_omp.cpp &gt; pair_gauss_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gauss_cut.cpp &gt; pair_gauss_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_gauss.cpp &gt; pair_gauss.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eim_omp.cpp &gt; pair_eim_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eim.cpp &gt; pair_eim.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eff_cut.cpp &gt; pair_eff_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_edip_omp.cpp &gt; pair_edip_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_edip.cpp &gt; pair_edip.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_opt.cpp &gt; pair_eam_opt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_omp.cpp &gt; pair_eam_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_kokkos.cpp &gt; pair_eam_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_fs_opt.cpp &gt; pair_eam_fs_opt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_fs_omp.cpp &gt; pair_eam_fs_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_fs_kokkos.cpp &gt; pair_eam_fs_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_fs.cpp &gt; pair_eam_fs.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam.cpp &gt; pair_eam.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_alloy_opt.cpp &gt; pair_eam_alloy_opt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_alloy_omp.cpp &gt; pair_eam_alloy_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_alloy_kokkos.cpp &gt; pair_eam_alloy_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_eam_alloy.cpp &gt; pair_eam_alloy.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_dsmc.cpp &gt; pair_dsmc.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_dpd_tstat_omp.cpp &gt; pair_dpd_tstat_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_dpd_tstat.cpp &gt; pair_dpd_tstat.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_dpd_omp.cpp &gt; pair_dpd_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_dpd.cpp &gt; pair_dpd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair.cpp &gt; pair.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_wolf_omp.cpp &gt; pair_coul_wolf_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_wolf_kokkos.cpp &gt; pair_coul_wolf_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_wolf.cpp &gt; pair_coul_wolf.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_streitz.cpp &gt; pair_coul_streitz.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_msm_omp.cpp &gt; pair_coul_msm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_msm.cpp &gt; pair_coul_msm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_long_soft_omp.cpp &gt; pair_coul_long_soft_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_long_soft.cpp &gt; pair_coul_long_soft.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_long_omp.cpp &gt; pair_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_long_kokkos.cpp &gt; pair_coul_long_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_long.cpp &gt; pair_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_dsf_omp.cpp &gt; pair_coul_dsf_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_dsf_kokkos.cpp &gt; pair_coul_dsf_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_dsf.cpp &gt; pair_coul_dsf.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_diel_omp.cpp &gt; pair_coul_diel_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_diel.cpp &gt; pair_coul_diel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_debye_omp.cpp &gt; pair_coul_debye_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_debye_kokkos.cpp &gt; pair_coul_debye_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_debye.cpp &gt; pair_coul_debye.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_cut_soft_omp.cpp &gt; pair_coul_cut_soft_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_cut_soft.cpp &gt; pair_coul_cut_soft.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_cut_omp.cpp &gt; pair_coul_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_cut_kokkos.cpp &gt; pair_coul_cut_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_coul_cut.cpp &gt; pair_coul_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_comb_omp.cpp &gt; pair_comb_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_comb.cpp &gt; pair_comb.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_comb3.cpp &gt; pair_comb3.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_colloid_omp.cpp &gt; pair_colloid_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_colloid.cpp &gt; pair_colloid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_cdeam_omp.cpp &gt; pair_cdeam_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_cdeam.cpp &gt; pair_cdeam.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_omp.cpp &gt; pair_buck_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_long_coul_long_omp.cpp &gt; pair_buck_long_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_long_coul_long.cpp &gt; pair_buck_long_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_kokkos.cpp &gt; pair_buck_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck.cpp &gt; pair_buck.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_msm_omp.cpp &gt; pair_buck_coul_msm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_msm.cpp &gt; pair_buck_coul_msm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_long_omp.cpp &gt; pair_buck_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_long_kokkos.cpp &gt; pair_buck_coul_long_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_long_cs.cpp &gt; pair_buck_coul_long_cs.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_long.cpp &gt; pair_buck_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_cut_omp.cpp &gt; pair_buck_coul_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_cut_kokkos.cpp &gt; pair_buck_coul_cut_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_buck_coul_cut.cpp &gt; pair_buck_coul_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_brownian_poly_omp.cpp &gt; pair_brownian_poly_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_brownian_poly.cpp &gt; pair_brownian_poly.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_brownian_omp.cpp &gt; pair_brownian_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_brownian.cpp &gt; pair_brownian.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born_omp.cpp &gt; pair_born_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born.cpp &gt; pair_born.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born_coul_wolf_omp.cpp &gt; pair_born_coul_wolf_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born_coul_wolf.cpp &gt; pair_born_coul_wolf.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born_coul_msm_omp.cpp &gt; pair_born_coul_msm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born_coul_msm.cpp &gt; pair_born_coul_msm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born_coul_long_omp.cpp &gt; pair_born_coul_long_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born_coul_long_cs.cpp &gt; pair_born_coul_long_cs.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_born_coul_long.cpp &gt; pair_born_coul_long.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_bop.cpp &gt; pair_bop.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_body.cpp &gt; pair_body.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_beck_omp.cpp &gt; pair_beck_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_beck.cpp &gt; pair_beck.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_airebo_omp.cpp &gt; pair_airebo_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_airebo.cpp &gt; pair_airebo.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_adp_omp.cpp &gt; pair_adp_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../pair_adp.cpp &gt; pair_adp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../output.cpp &gt; output.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_stencil.cpp &gt; neigh_stencil.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_respa_omp.cpp &gt; neigh_respa_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_respa.cpp &gt; neigh_respa.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_request.cpp &gt; neigh_request.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_list_kokkos.cpp &gt; neigh_list_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_list.cpp &gt; neigh_list.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_half_nsq_omp.cpp &gt; neigh_half_nsq_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_half_nsq.cpp &gt; neigh_half_nsq.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_half_multi_omp.cpp &gt; neigh_half_multi_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_half_multi.cpp &gt; neigh_half_multi.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_half_bin_omp.cpp &gt; neigh_half_bin_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_half_bin_intel.cpp &gt; neigh_half_bin_intel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_half_bin.cpp &gt; neigh_half_bin.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_gran_omp.cpp &gt; neigh_gran_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_gran.cpp &gt; neigh_gran.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_full_omp.cpp &gt; neigh_full_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_full.cpp &gt; neigh_full.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_derive_omp.cpp &gt; neigh_derive_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_derive.cpp &gt; neigh_derive.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neighbor_kokkos.cpp &gt; neighbor_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neighbor.cpp &gt; neighbor.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_bond_kokkos.cpp &gt; neigh_bond_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neigh_bond.cpp &gt; neigh_bond.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../neb.cpp &gt; neb.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../msm_omp.cpp &gt; msm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../msm.cpp &gt; msm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../msm_cg_omp.cpp &gt; msm_cg_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../msm_cg.cpp &gt; msm_cg.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../molecule.cpp &gt; molecule.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../modify_kokkos.cpp &gt; modify_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../modify.cpp &gt; modify.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../min_sd.cpp &gt; min_sd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../min_quickmin.cpp &gt; min_quickmin.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../min_linesearch.cpp &gt; min_linesearch.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../minimize.cpp &gt; minimize.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../min_hftn.cpp &gt; min_hftn.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../min_fire.cpp &gt; min_fire.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../min.cpp &gt; min.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../min_cg.cpp &gt; min_cg.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../memory.cpp &gt; memory.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../math_extra.cpp &gt; math_extra.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../main.cpp &gt; main.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../library.cpp &gt; library.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../lattice.cpp &gt; lattice.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../lammps.cpp &gt; lammps.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../kspace.cpp &gt; kspace.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../kokkos.cpp &gt; kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../irregular.cpp &gt; irregular.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../intel_buffers.cpp &gt; intel_buffers.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../integrate.cpp &gt; integrate.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../input.cpp &gt; input.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_umbrella_omp.cpp &gt; improper_umbrella_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_umbrella.cpp &gt; improper_umbrella.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_ring_omp.cpp &gt; improper_ring_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_ring.cpp &gt; improper_ring.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_hybrid.cpp &gt; improper_hybrid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_harmonic_omp.cpp &gt; improper_harmonic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_harmonic_kokkos.cpp &gt; improper_harmonic_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_harmonic.cpp &gt; improper_harmonic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_fourier_omp.cpp &gt; improper_fourier_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_fourier.cpp &gt; improper_fourier.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_cvff_omp.cpp &gt; improper_cvff_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_cvff.cpp &gt; improper_cvff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper.cpp &gt; improper.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_cossq_omp.cpp &gt; improper_cossq_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_cossq.cpp &gt; improper_cossq.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_class2_omp.cpp &gt; improper_class2_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../improper_class2.cpp &gt; improper_class2.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../image.cpp &gt; image.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../group_ndx.cpp &gt; group_ndx.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../group.cpp &gt; group.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../gridcomm.cpp &gt; gridcomm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../force.cpp &gt; force.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_srd.cpp &gt; fix_wall_srd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_region.cpp &gt; fix_wall_region.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_reflect.cpp &gt; fix_wall_reflect.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_piston.cpp &gt; fix_wall_piston.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_lj93.cpp &gt; fix_wall_lj93.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_lj126.cpp &gt; fix_wall_lj126.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_lj1043.cpp &gt; fix_wall_lj1043.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_harmonic.cpp &gt; fix_wall_harmonic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_gran_omp.cpp &gt; fix_wall_gran_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_gran.cpp &gt; fix_wall_gran.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall.cpp &gt; fix_wall.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_wall_colloid.cpp &gt; fix_wall_colloid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_viscous.cpp &gt; fix_viscous.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_viscosity.cpp &gt; fix_viscosity.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_vector.cpp &gt; fix_vector.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_tune_kspace.cpp &gt; fix_tune_kspace.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ttm_mod.cpp &gt; fix_ttm_mod.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ttm.cpp &gt; fix_ttm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_tmd.cpp &gt; fix_tmd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ti_spring.cpp &gt; fix_ti_spring.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ti_rs.cpp &gt; fix_ti_rs.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_thermal_conductivity.cpp &gt; fix_thermal_conductivity.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_tfmc.cpp &gt; fix_tfmc.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_temp_rescale_eff.cpp &gt; fix_temp_rescale_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_temp_rescale.cpp &gt; fix_temp_rescale.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_temp_csvr.cpp &gt; fix_temp_csvr.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_temp_csld.cpp &gt; fix_temp_csld.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_temp_berendsen.cpp &gt; fix_temp_berendsen.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_store_state.cpp &gt; fix_store_state.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_store_force.cpp &gt; fix_store_force.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_store.cpp &gt; fix_store.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_srp.cpp &gt; fix_srp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_srd.cpp &gt; fix_srd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_spring_self.cpp &gt; fix_spring_self.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_spring_rg.cpp &gt; fix_spring_rg.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_spring.cpp &gt; fix_spring.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_smd.cpp &gt; fix_smd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_shear_history_omp.cpp &gt; fix_shear_history_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_shear_history.cpp &gt; fix_shear_history.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_shake.cpp &gt; fix_shake.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_setforce.cpp &gt; fix_setforce.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_small_omp.cpp &gt; fix_rigid_small_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_small.cpp &gt; fix_rigid_small.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_omp.cpp &gt; fix_rigid_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nvt_small.cpp &gt; fix_rigid_nvt_small.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nvt_omp.cpp &gt; fix_rigid_nvt_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nvt.cpp &gt; fix_rigid_nvt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nve_small.cpp &gt; fix_rigid_nve_small.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nve_omp.cpp &gt; fix_rigid_nve_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nve.cpp &gt; fix_rigid_nve.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_npt_small.cpp &gt; fix_rigid_npt_small.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_npt_omp.cpp &gt; fix_rigid_npt_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_npt.cpp &gt; fix_rigid_npt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nph_small.cpp &gt; fix_rigid_nph_small.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nph_omp.cpp &gt; fix_rigid_nph_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nph.cpp &gt; fix_rigid_nph.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nh_small.cpp &gt; fix_rigid_nh_small.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nh_omp.cpp &gt; fix_rigid_nh_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid_nh.cpp &gt; fix_rigid_nh.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rigid.cpp &gt; fix_rigid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_restrain.cpp &gt; fix_restrain.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_respa.cpp &gt; fix_respa.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_recenter.cpp &gt; fix_recenter.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_reaxc_species.cpp &gt; fix_reaxc_species.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_reax_c.cpp &gt; fix_reax_c.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_reaxc_bonds.cpp &gt; fix_reaxc_bonds.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_reax_bonds.cpp &gt; fix_reax_bonds.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_read_restart.cpp &gt; fix_read_restart.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_rattle.cpp &gt; fix_rattle.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_qeq_slater.cpp &gt; fix_qeq_slater.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_qeq_shielded.cpp &gt; fix_qeq_shielded.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_qeq_reax.cpp &gt; fix_qeq_reax.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_qeq_point.cpp &gt; fix_qeq_point.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_qeq_dynamic.cpp &gt; fix_qeq_dynamic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_qeq.cpp &gt; fix_qeq.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_qeq_comb_omp.cpp &gt; fix_qeq_comb_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_qeq_comb.cpp &gt; fix_qeq_comb.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_property_atom.cpp &gt; fix_property_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_print.cpp &gt; fix_print.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_press_berendsen.cpp &gt; fix_press_berendsen.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_pour.cpp &gt; fix_pour.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_poems.cpp &gt; fix_poems.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_planeforce.cpp &gt; fix_planeforce.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_pimd.cpp &gt; fix_pimd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_phonon.cpp &gt; fix_phonon.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_peri_neigh_omp.cpp &gt; fix_peri_neigh_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_peri_neigh.cpp &gt; fix_peri_neigh.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_orient_fcc.cpp &gt; fix_orient_fcc.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_oneway.cpp &gt; fix_oneway.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_omp.cpp &gt; fix_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_sphere_omp.cpp &gt; fix_nvt_sphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_sphere.cpp &gt; fix_nvt_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_sllod_omp.cpp &gt; fix_nvt_sllod_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_sllod_eff.cpp &gt; fix_nvt_sllod_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_sllod.cpp &gt; fix_nvt_sllod.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_omp.cpp &gt; fix_nvt_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_eff.cpp &gt; fix_nvt_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt.cpp &gt; fix_nvt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_asphere_omp.cpp &gt; fix_nvt_asphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nvt_asphere.cpp &gt; fix_nvt_asphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_tri.cpp &gt; fix_nve_tri.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_sphere_omp.cpp &gt; fix_nve_sphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_sphere.cpp &gt; fix_nve_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_omp.cpp &gt; fix_nve_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_noforce.cpp &gt; fix_nve_noforce.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_line.cpp &gt; fix_nve_line.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_limit.cpp &gt; fix_nve_limit.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_kokkos.cpp &gt; fix_nve_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_eff.cpp &gt; fix_nve_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve.cpp &gt; fix_nve.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_body.cpp &gt; fix_nve_body.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_asphere_noforce.cpp &gt; fix_nve_asphere_noforce.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nve_asphere.cpp &gt; fix_nve_asphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_npt_sphere_omp.cpp &gt; fix_npt_sphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_npt_sphere.cpp &gt; fix_npt_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_npt_omp.cpp &gt; fix_npt_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_npt_eff.cpp &gt; fix_npt_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_npt.cpp &gt; fix_npt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_npt_asphere_omp.cpp &gt; fix_npt_asphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_npt_asphere.cpp &gt; fix_npt_asphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nphug_omp.cpp &gt; fix_nphug_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nphug.cpp &gt; fix_nphug.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nph_sphere_omp.cpp &gt; fix_nph_sphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nph_sphere.cpp &gt; fix_nph_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nph_omp.cpp &gt; fix_nph_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nph_eff.cpp &gt; fix_nph_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nph.cpp &gt; fix_nph.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nph_asphere_omp.cpp &gt; fix_nph_asphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nph_asphere.cpp &gt; fix_nph_asphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nh_sphere_omp.cpp &gt; fix_nh_sphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nh_sphere.cpp &gt; fix_nh_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nh_omp.cpp &gt; fix_nh_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nh_eff.cpp &gt; fix_nh_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nh.cpp &gt; fix_nh.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nh_asphere_omp.cpp &gt; fix_nh_asphere_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_nh_asphere.cpp &gt; fix_nh_asphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_neb.cpp &gt; fix_neb.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_msst.cpp &gt; fix_msst.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_move.cpp &gt; fix_move.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_momentum.cpp &gt; fix_momentum.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_minimize.cpp &gt; fix_minimize.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_meso_stationary.cpp &gt; fix_meso_stationary.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_meso.cpp &gt; fix_meso.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_lineforce.cpp &gt; fix_lineforce.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_lb_viscous.cpp &gt; fix_lb_viscous.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_lb_rigid_pc_sphere.cpp &gt; fix_lb_rigid_pc_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_lb_pc.cpp &gt; fix_lb_pc.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_lb_momentum.cpp &gt; fix_lb_momentum.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_lb_fluid.cpp &gt; fix_lb_fluid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_langevin_kokkos.cpp &gt; fix_langevin_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_langevin_eff.cpp &gt; fix_langevin_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_langevin.cpp &gt; fix_langevin.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ipi.cpp &gt; fix_ipi.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_intel.cpp &gt; fix_intel.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_indent.cpp &gt; fix_indent.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_imd.cpp &gt; fix_imd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_heat.cpp &gt; fix_heat.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_group.cpp &gt; fix_group.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_gravity_omp.cpp &gt; fix_gravity_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_gravity.cpp &gt; fix_gravity.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_gle.cpp &gt; fix_gle.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_gld.cpp &gt; fix_gld.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_gcmc.cpp &gt; fix_gcmc.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_freeze.cpp &gt; fix_freeze.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_external.cpp &gt; fix_external.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_event_tad.cpp &gt; fix_event_tad.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_event_prd.cpp &gt; fix_event_prd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_event.cpp &gt; fix_event.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_evaporate.cpp &gt; fix_evaporate.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_enforce2d.cpp &gt; fix_enforce2d.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_efield.cpp &gt; fix_efield.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_dt_reset.cpp &gt; fix_dt_reset.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_drag.cpp &gt; fix_drag.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_deposit.cpp &gt; fix_deposit.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_deform.cpp &gt; fix_deform.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix.cpp &gt; fix.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_colvars.cpp &gt; fix_colvars.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_box_relax.cpp &gt; fix_box_relax.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_bond_swap.cpp &gt; fix_bond_swap.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_bond_create.cpp &gt; fix_bond_create.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_bond_break.cpp &gt; fix_bond_break.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_balance.cpp &gt; fix_balance.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ave_time.cpp &gt; fix_ave_time.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ave_spatial_sphere.cpp &gt; fix_ave_spatial_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ave_spatial.cpp &gt; fix_ave_spatial.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ave_histo.cpp &gt; fix_ave_histo.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_aveforce.cpp &gt; fix_aveforce.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ave_correlate.cpp &gt; fix_ave_correlate.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ave_chunk.cpp &gt; fix_ave_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_ave_atom.cpp &gt; fix_ave_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_atom_swap.cpp &gt; fix_atom_swap.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_append_atoms.cpp &gt; fix_append_atoms.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_addtorque.cpp &gt; fix_addtorque.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_addforce.cpp &gt; fix_addforce.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_adapt_fep.cpp &gt; fix_adapt_fep.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fix_adapt.cpp &gt; fix_adapt.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../finish.cpp &gt; finish.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fft3d_wrap.cpp &gt; fft3d_wrap.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../fft3d.cpp &gt; fft3d.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../ewald_omp.cpp &gt; ewald_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../ewald_disp.cpp &gt; ewald_disp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../ewald.cpp &gt; ewald.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../error.cpp &gt; error.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_xyz_mpiio.cpp &gt; dump_xyz_mpiio.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_xyz.cpp &gt; dump_xyz.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_xtc.cpp &gt; dump_xtc.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_movie.cpp &gt; dump_movie.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_local.cpp &gt; dump_local.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_image.cpp &gt; dump_image.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_dcd.cpp &gt; dump_dcd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_custom_mpiio.cpp &gt; dump_custom_mpiio.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_custom.cpp &gt; dump_custom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump.cpp &gt; dump.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_cfg_mpiio.cpp &gt; dump_cfg_mpiio.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_cfg.cpp &gt; dump_cfg.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_atom_mpiio.cpp &gt; dump_atom_mpiio.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dump_atom.cpp &gt; dump_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../domain_omp.cpp &gt; domain_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../domain_kokkos.cpp &gt; domain_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../domain.cpp &gt; domain.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../displace_atoms.cpp &gt; displace_atoms.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_table_omp.cpp &gt; dihedral_table_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_table.cpp &gt; dihedral_table.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_quadratic_omp.cpp &gt; dihedral_quadratic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_quadratic.cpp &gt; dihedral_quadratic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_opls_omp.cpp &gt; dihedral_opls_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_opls_kokkos.cpp &gt; dihedral_opls_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_opls.cpp &gt; dihedral_opls.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_nharmonic_omp.cpp &gt; dihedral_nharmonic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_nharmonic.cpp &gt; dihedral_nharmonic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_multi_harmonic_omp.cpp &gt; dihedral_multi_harmonic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_multi_harmonic.cpp &gt; dihedral_multi_harmonic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_hybrid.cpp &gt; dihedral_hybrid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_helix_omp.cpp &gt; dihedral_helix_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_helix.cpp &gt; dihedral_helix.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_harmonic_omp.cpp &gt; dihedral_harmonic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_harmonic.cpp &gt; dihedral_harmonic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_fourier_omp.cpp &gt; dihedral_fourier_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_fourier.cpp &gt; dihedral_fourier.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral.cpp &gt; dihedral.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_cosine_shift_exp_omp.cpp &gt; dihedral_cosine_shift_exp_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_cosine_shift_exp.cpp &gt; dihedral_cosine_shift_exp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_class2_omp.cpp &gt; dihedral_class2_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_class2.cpp &gt; dihedral_class2.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_charmm_omp.cpp &gt; dihedral_charmm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_charmm_kokkos.cpp &gt; dihedral_charmm_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../dihedral_charmm.cpp &gt; dihedral_charmm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../delete_bonds.cpp &gt; delete_bonds.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../delete_atoms.cpp &gt; delete_atoms.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../create_box.cpp &gt; create_box.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../create_bonds.cpp &gt; create_bonds.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../create_atoms.cpp &gt; create_atoms.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_vcm_chunk.cpp &gt; compute_vcm_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_vacf.cpp &gt; compute_vacf.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_torque_chunk.cpp &gt; compute_torque_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_ti.cpp &gt; compute_ti.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_sphere.cpp &gt; compute_temp_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_rotate.cpp &gt; compute_temp_rotate.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_region_eff.cpp &gt; compute_temp_region_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_region.cpp &gt; compute_temp_region.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_ramp.cpp &gt; compute_temp_ramp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_profile.cpp &gt; compute_temp_profile.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_partial.cpp &gt; compute_temp_partial.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_eff.cpp &gt; compute_temp_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_deform_eff.cpp &gt; compute_temp_deform_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_deform.cpp &gt; compute_temp_deform.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_cs.cpp &gt; compute_temp_cs.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp.cpp &gt; compute_temp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_com.cpp &gt; compute_temp_com.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_chunk.cpp &gt; compute_temp_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_temp_asphere.cpp &gt; compute_temp_asphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_stress_atom.cpp &gt; compute_stress_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_spec_atom.cpp &gt; compute_spec_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_snav_atom.cpp &gt; compute_snav_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_snad_atom.cpp &gt; compute_snad_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_sna_atom.cpp &gt; compute_sna_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_slice.cpp &gt; compute_slice.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_reduce_region.cpp &gt; compute_reduce_region.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_reduce.cpp &gt; compute_reduce.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_rdf.cpp &gt; compute_rdf.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_property_local.cpp &gt; compute_property_local.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_property_chunk.cpp &gt; compute_property_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_property_atom.cpp &gt; compute_property_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_pressure.cpp &gt; compute_pressure.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_plasticity_atom.cpp &gt; compute_plasticity_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_pe.cpp &gt; compute_pe.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_pe_atom.cpp &gt; compute_pe_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_pair_local.cpp &gt; compute_pair_local.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_pair.cpp &gt; compute_pair.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_omega_chunk.cpp &gt; compute_omega_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_msd_nongauss.cpp &gt; compute_msd_nongauss.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_msd.cpp &gt; compute_msd.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_msd_chunk.cpp &gt; compute_msd_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_meso_t_atom.cpp &gt; compute_meso_t_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_meso_rho_atom.cpp &gt; compute_meso_rho_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_meso_e_atom.cpp &gt; compute_meso_e_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_ke_rigid.cpp &gt; compute_ke_rigid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_ke_eff.cpp &gt; compute_ke_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_ke.cpp &gt; compute_ke.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_ke_atom_eff.cpp &gt; compute_ke_atom_eff.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_ke_atom.cpp &gt; compute_ke_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_inertia_chunk.cpp &gt; compute_inertia_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_improper_local.cpp &gt; compute_improper_local.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_heat_flux.cpp &gt; compute_heat_flux.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_gyration.cpp &gt; compute_gyration.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_gyration_chunk.cpp &gt; compute_gyration_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_group_group.cpp &gt; compute_group_group.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_fep.cpp &gt; compute_fep.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_event_displace.cpp &gt; compute_event_displace.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_erotate_sphere.cpp &gt; compute_erotate_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_erotate_sphere_atom.cpp &gt; compute_erotate_sphere_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_erotate_rigid.cpp &gt; compute_erotate_rigid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_erotate_asphere.cpp &gt; compute_erotate_asphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_displace_atom.cpp &gt; compute_displace_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_dilatation_atom.cpp &gt; compute_dilatation_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_dihedral_local.cpp &gt; compute_dihedral_local.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_damage_atom.cpp &gt; compute_damage_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute.cpp &gt; compute.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_coord_atom.cpp &gt; compute_coord_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_contact_atom.cpp &gt; compute_contact_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_com.cpp &gt; compute_com.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_com_chunk.cpp &gt; compute_com_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_cna_atom.cpp &gt; compute_cna_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_cluster_atom.cpp &gt; compute_cluster_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_chunk_atom.cpp &gt; compute_chunk_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_centro_atom.cpp &gt; compute_centro_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_bond_local.cpp &gt; compute_bond_local.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_body_local.cpp &gt; compute_body_local.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_basal_atom.cpp &gt; compute_basal_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_angmom_chunk.cpp &gt; compute_angmom_chunk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_angle_local.cpp &gt; compute_angle_local.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../compute_ackland_atom.cpp &gt; compute_ackland_atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../comm_tiled.cpp &gt; comm_tiled.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../comm_kokkos.cpp &gt; comm_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../comm.cpp &gt; comm.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../comm_brick.cpp &gt; comm_brick.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../colvarproxy_lammps.cpp &gt; colvarproxy_lammps.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../citeme.cpp &gt; citeme.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../change_box.cpp &gt; change_box.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_table_omp.cpp &gt; bond_table_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_table.cpp &gt; bond_table.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_quartic_omp.cpp &gt; bond_quartic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_quartic.cpp &gt; bond_quartic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_nonlinear_omp.cpp &gt; bond_nonlinear_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_nonlinear.cpp &gt; bond_nonlinear.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_morse_omp.cpp &gt; bond_morse_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_morse.cpp &gt; bond_morse.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_hybrid.cpp &gt; bond_hybrid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_harmonic_shift_omp.cpp &gt; bond_harmonic_shift_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_harmonic_shift_cut_omp.cpp &gt; bond_harmonic_shift_cut_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_harmonic_shift_cut.cpp &gt; bond_harmonic_shift_cut.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_harmonic_shift.cpp &gt; bond_harmonic_shift.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_harmonic_omp.cpp &gt; bond_harmonic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_harmonic_kokkos.cpp &gt; bond_harmonic_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_harmonic.cpp &gt; bond_harmonic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_fene_omp.cpp &gt; bond_fene_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_fene_kokkos.cpp &gt; bond_fene_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_fene_expand_omp.cpp &gt; bond_fene_expand_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_fene_expand.cpp &gt; bond_fene_expand.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_fene.cpp &gt; bond_fene.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond.cpp &gt; bond.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_class2_omp.cpp &gt; bond_class2_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../bond_class2.cpp &gt; bond_class2.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../body_nparticle.cpp &gt; body_nparticle.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../body.cpp &gt; body.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../balance.cpp &gt; balance.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_tri.cpp &gt; atom_vec_tri.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_template.cpp &gt; atom_vec_template.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_sphere.cpp &gt; atom_vec_sphere.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_peri.cpp &gt; atom_vec_peri.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_molecular_kokkos.cpp &gt; atom_vec_molecular_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_molecular.cpp &gt; atom_vec_molecular.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_meso.cpp &gt; atom_vec_meso.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_line.cpp &gt; atom_vec_line.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_kokkos.cpp &gt; atom_vec_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_hybrid.cpp &gt; atom_vec_hybrid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_full_kokkos.cpp &gt; atom_vec_full_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_full.cpp &gt; atom_vec_full.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_ellipsoid.cpp &gt; atom_vec_ellipsoid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_electron.cpp &gt; atom_vec_electron.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_dipole.cpp &gt; atom_vec_dipole.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec.cpp &gt; atom_vec.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_charge_kokkos.cpp &gt; atom_vec_charge_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_charge.cpp &gt; atom_vec_charge.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_bond_kokkos.cpp &gt; atom_vec_bond_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_bond.cpp &gt; atom_vec_bond.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_body.cpp &gt; atom_vec_body.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_atomic_kokkos.cpp &gt; atom_vec_atomic_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_atomic.cpp &gt; atom_vec_atomic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_angle_kokkos.cpp &gt; atom_vec_angle_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_vec_angle.cpp &gt; atom_vec_angle.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_map.cpp &gt; atom_map.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom_kokkos.cpp &gt; atom_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../atom.cpp &gt; atom.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_table_omp.cpp &gt; angle_table_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_table.cpp &gt; angle_table.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_sdk_omp.cpp &gt; angle_sdk_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_sdk.cpp &gt; angle_sdk.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_quartic_omp.cpp &gt; angle_quartic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_quartic.cpp &gt; angle_quartic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_hybrid.cpp &gt; angle_hybrid.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_harmonic_omp.cpp &gt; angle_harmonic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_harmonic_kokkos.cpp &gt; angle_harmonic_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_harmonic.cpp &gt; angle_harmonic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_fourier_simple_omp.cpp &gt; angle_fourier_simple_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_fourier_simple.cpp &gt; angle_fourier_simple.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_fourier_omp.cpp &gt; angle_fourier_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_fourier.cpp &gt; angle_fourier.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_dipole_omp.cpp &gt; angle_dipole_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_dipole.cpp &gt; angle_dipole.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle.cpp &gt; angle.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_squared_omp.cpp &gt; angle_cosine_squared_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_squared.cpp &gt; angle_cosine_squared.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_shift_omp.cpp &gt; angle_cosine_shift_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_shift_exp_omp.cpp &gt; angle_cosine_shift_exp_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_shift_exp.cpp &gt; angle_cosine_shift_exp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_shift.cpp &gt; angle_cosine_shift.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_periodic_omp.cpp &gt; angle_cosine_periodic_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_periodic.cpp &gt; angle_cosine_periodic.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_omp.cpp &gt; angle_cosine_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_delta_omp.cpp &gt; angle_cosine_delta_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine_delta.cpp &gt; angle_cosine_delta.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_cosine.cpp &gt; angle_cosine.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_class2_omp.cpp &gt; angle_class2_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_class2.cpp &gt; angle_class2.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_charmm_omp.cpp &gt; angle_charmm_omp.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_charmm_kokkos.cpp &gt; angle_charmm_kokkos.d
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64 -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -M ../angle_charmm.cpp &gt; angle_charmm.d
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CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_charmm.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_charmm_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_charmm_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_class2.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_class2_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_delta.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_delta_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_periodic.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_periodic_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_shift.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_shift_exp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_shift_exp_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_shift_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_squared.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_cosine_squared_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_dipole.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_dipole_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_fourier.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_fourier_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_fourier_simple.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_fourier_simple_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_harmonic.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_harmonic_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_harmonic_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_hybrid.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_quartic.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_quartic_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_sdk.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_sdk_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_table.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../angle_table_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_map.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_angle.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_angle_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_atomic.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_atomic_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_body.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_bond.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_bond_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_charge.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_charge_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_dipole.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_electron.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_ellipsoid.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_full.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_full_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_hybrid.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_line.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_meso.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_molecular.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_molecular_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_peri.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_sphere.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_template.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../atom_vec_tri.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../balance.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../body.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../body_nparticle.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_class2.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_class2_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_fene.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_fene_expand.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_fene_expand_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_fene_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_fene_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_harmonic.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_harmonic_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_harmonic_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_harmonic_shift.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_harmonic_shift_cut.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_harmonic_shift_cut_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_harmonic_shift_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_hybrid.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_morse.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_morse_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_nonlinear.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_nonlinear_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_quartic.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_quartic_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_table.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../bond_table_omp.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../change_box.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../citeme.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../colvarproxy_lammps.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../comm_brick.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../comm.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../comm_kokkos.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../comm_tiled.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_ackland_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_angle_local.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_angmom_chunk.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_basal_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_body_local.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_bond_local.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_centro_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_chunk_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_cluster_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_cna_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_com_chunk.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_com.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_contact_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_coord_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_damage_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_dihedral_local.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_dilatation_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_displace_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_erotate_asphere.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_erotate_rigid.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_erotate_sphere_atom.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_erotate_sphere.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_event_displace.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_fep.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_group_group.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_gyration_chunk.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_gyration.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_heat_flux.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_improper_local.cpp
CC -O3 -ffast-math -fstrict-aliasing -fomit-frame-pointer -finline-functions -DLAMMPS_MEMALIGN=64  -DLAMMPS_GZIP -DLMP_USER_OMP -DLMP_USER_INTEL -I../../lib/colvars -I../../lib/reax -I../../lib/poems -DLMP_MPIIO -I../../lib/meam -DLMP_KOKKOS  -DMPICH_SKIP_MPICXX -DFFT_FFTW3     -I../../lib/kokkos/core/src -I../../lib/kokkos/containers/src -I../../lib/kokkos/algorithms/src -I../../lib/kokkos/linalg/src -I../ -DKOKKOS_DONT_INCLUDE_CORE_CONFIG_H  -DKOKKOS_HAVE_PTHREAD -DKOKKOS_HAVE_OPENMP  -fopenmp --std=c++11 -DKOKKOS_HAVE_CXX11  -c ../compute_inertia_chunk.cpp
Build was aborted
Aborted by <a href='/user/tbouvet' class='jenkins-table__link model-link model-link--float'>tbouvet</a>
Recording plot data
Saving plot series data from: /var/lib/jenkins/workspace/LAMMPS/cputime
Saving plot series data from: /var/lib/jenkins/workspace/LAMMPS/memory
Finished: ABORTED