Console Output

Started by user arnoldg
Running as SYSTEM
Building in workspace /var/lib/jenkins/jobs/mpiGraph/workspace
[SSH] script:
PATH="/sw/tools/bin:/sw/tools/bin:$PATH"
NODELIST=""""
ACCOUNT="bbmb-hydro"
PARTITION="sandybridge"
NODES="16"


# tar xvf /var/tmp/mpiGraph.tar  # galen's copy of the benchmark
cd mpiGraph
export PATH=~/mpiGraph:$PATH


# if the NODELIST parameter was filled in, proceed with a targeted test 
if [[ ! -z ${NODELIST} ]]
then

   srun --mem=16g --nodes=${NODES} --ntasks-per-node=1 --time=00:10:00 --job-name=mpiGraph \
      --partition=${PARTITION} --nodelist=${NODELIST} \
      --account=${ACCOUNT} ${GPUS} \
      mpiGraph 1048576 1000 10 > mpiGraph.out
   
   if [ "${NODES}" == "16" ]
   then
      bash clip-plot.sh 16 
   fi

   exit
fi

# otherwise, if NODELIST is "", run the default test on 1st avail nodes

srun --nodes=${NODES}  \
  --mem=16g --ntasks-per-node=1 --time=00:10:00 --job-name=mpiGraph \
  --account=${ACCOUNT} \
  --partition=${PARTITION}  \
 mpiGraph 1048576 1000 10 > mpiGraph.out

 if [ "${NODES}" == "16" ]
 then
      bash clip-plot.sh 16 
 fi

[SSH] executing...
NODECOUNT=$1
+ NODECOUNT=16

# clip out the Send table and plot it
egrep --after-context=$NODECOUNT "^Send\s+cn" mpiGraph.out \
   | sed -e s/.to//g \
   | sed -e s/.delta.ncsa.illinois.edu//g > send.txt
+ egrep --after-context=16 '^Send\s+cn' mpiGraph.out
+ sed -e s/.to//g
+ sed -e s/.delta.ncsa.illinois.edu//g
python3 send.py
+ python3 send.py
Traceback (most recent call last):
  File "/u/svchydrojenkins/mpiGraph/send.py", line 9, in <module>
    df = pd.read_csv("send.txt", sep = "\t")
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/util/_decorators.py", line 311, in wrapper
    return func(*args, **kwargs)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/readers.py", line 680, in read_csv
    return _read(filepath_or_buffer, kwds)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/readers.py", line 575, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/readers.py", line 933, in __init__
    self._engine = self._make_engine(f, self.engine)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/readers.py", line 1235, in _make_engine
    return mapping[engine](f, **self.options)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/c_parser_wrapper.py", line 75, in __init__
    self._reader = parsers.TextReader(src, **kwds)
  File "pandas/_libs/parsers.pyx", line 551, in pandas._libs.parsers.TextReader.__cinit__
pandas.errors.EmptyDataError: No columns to parse from file

# clip out the Recv table and plot it
egrep --after-context=$NODECOUNT "^Recv\s+cn" mpiGraph.out \
   | sed -e s/.from//g \
   | sed -e s/.delta.ncsa.illinois.edu//g > recv.txt
+ egrep --after-context=16 '^Recv\s+cn' mpiGraph.out
+ sed -e s/.from//g
+ sed -e s/.delta.ncsa.illinois.edu//g
python3 recv.py
+ python3 recv.py
Traceback (most recent call last):
  File "/u/svchydrojenkins/mpiGraph/recv.py", line 9, in <module>
    df = pd.read_csv("recv.txt", sep = "\t")
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/util/_decorators.py", line 311, in wrapper
    return func(*args, **kwargs)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/readers.py", line 680, in read_csv
    return _read(filepath_or_buffer, kwds)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/readers.py", line 575, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/readers.py", line 933, in __init__
    self._engine = self._make_engine(f, self.engine)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/readers.py", line 1235, in _make_engine
    return mapping[engine](f, **self.options)
  File "/sw/external/python/anaconda3_gpu/lib/python3.9/site-packages/pandas/io/parsers/c_parser_wrapper.py", line 75, in __init__
    self._reader = parsers.TextReader(src, **kwds)
  File "pandas/_libs/parsers.pyx", line 551, in pandas._libs.parsers.TextReader.__cinit__
pandas.errors.EmptyDataError: No columns to parse from file

[SSH] completed
[SSH] exit-status: 1

Build step 'Execute shell script on remote host using ssh' marked build as failure
Finished: FAILURE