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ENH: Do not override caught exceptions with FileNotFoundError from unfinished hashfile #2919

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Apr 20, 2019
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9 changes: 6 additions & 3 deletions nipype/pipeline/engine/nodes.py
Original file line number Diff line number Diff line change
Expand Up @@ -27,7 +27,7 @@
from ...utils.filemanip import (md5, FileNotFoundError, ensure_list,
simplify_list, copyfiles, fnames_presuffix,
loadpkl, split_filename, load_json, makedirs,
emptydirs, savepkl, to_str, indirectory)
emptydirs, savepkl, to_str, indirectory, silentrm)

from ...interfaces.base import (traits, InputMultiPath, CommandLine, Undefined,
DynamicTraitedSpec, Bunch, InterfaceResult,
Expand Down Expand Up @@ -440,7 +440,6 @@ def run(self, updatehash=False):
for outdatedhash in glob(op.join(self.output_dir(), '_0x*.json')):
os.remove(outdatedhash)


# Hashfile while running
hashfile_unfinished = op.join(
outdir, '_0x%s_unfinished.json' % self._hashvalue)
Expand Down Expand Up @@ -474,7 +473,11 @@ def run(self, updatehash=False):
except Exception:
logger.warning('[Node] Error on "%s" (%s)', self.fullname, outdir)
# Tear-up after error
os.remove(hashfile_unfinished)
if not silentrm(hashfile_unfinished):
logger.warning("""\
Interface finished unexpectedly and the corresponding unfinished hashfile %s \
does not exist. Another nipype instance may be running against the same work \
directory. Please ensure no other concurrent workflows are racing""", hashfile_unfinished)
raise

# Tear-up after success
Expand Down
21 changes: 21 additions & 0 deletions nipype/utils/filemanip.py
Original file line number Diff line number Diff line change
Expand Up @@ -832,6 +832,27 @@ def emptydirs(path, noexist_ok=False):
makedirs(path)


def silentrm(filename):
"""
Equivalent to ``rm -f``, returns ``False`` if the file did not
exist.

Parameters
----------

filename : str
file to be deleted

"""
try:
os.remove(filename)
except OSError as e:
if e.errno != errno.ENOENT:
raise
return False
return True


def which(cmd, env=None, pathext=None):
"""
Return the path to an executable which would be run if the given
Expand Down