diff --git a/Dockerfile b/Dockerfile index 62fa4e6..6339473 100755 --- a/Dockerfile +++ b/Dockerfile @@ -18,7 +18,8 @@ RUN python3 -m pip install -r "/app/requirements.txt" # insert pipeline code ADD https://github.com/DCAN-Labs/dcan-infant-pipeline.git version.json -RUN git clone -b 'v0.0.9' --single-branch --depth 1 https://github.com/DCAN-Labs/dcan-infant-pipeline.git /opt/pipeline +#RUN git clone -b 'v0.0.9' --single-branch --depth 1 https://github.com/DCAN-Labs/dcan-infant-pipeline.git /opt/pipeline +RUN git clone -b 'master' --single-branch --depth 1 https://github.com/DCAN-Labs/dcan-infant-pipeline.git /opt/pipeline # unless otherwise specified... diff --git a/app/pipelines.py b/app/pipelines.py index 31fe0a8..0a5b8ff 100755 --- a/app/pipelines.py +++ b/app/pipelines.py @@ -1146,7 +1146,9 @@ def _call(cmd, out_log, err_log, num_threads=1): if num_threads > 1: # set parallel environment variables env['OMP_NUM_THREADS'] = str(num_threads) - env['ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS'] = str(num_threads) + env['ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS'] = str(2) # str(num_threads) + if num_threads != 1: + print('Keep ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS at 1 instead of %s.' % num_threads) with open(out_log, 'w') as out, open(err_log, 'w') as err: result = subprocess.call(cmd.split(), stdout=out, stderr=err, env=env) if type(result) is list: