I am trying to make projections and slices in the same script and an iterating over several DD datasets, but after a while I get this error pasted below, it seems that there's some hdf5 error where h5py cannot open a file.  I've made sure the file exists and the script continues to run if I change the DD#### to continue where it failed.  I've already modified the script so that each DD is using a new python instace intead of iterating through the files with one python call.  I tried this in queue and interactive and get the same error, sometimes after many DD, but sometimes after only 1 or 2.  Is this indicative of memory issue?   If it is, I'm not getting the OOM messages even in interactive node.  Has anyone encountered this before?  I've stuck in import gc at the top and gc.collect() at the end of the script, too, but doesn't help.

 

From

G.S.

 

Traceback (most recent call last):
  File "moviesGrey.py", line 35, in <module>
    proj = pf.h.proj(0, field, weight_field=field)
  File "/home/ux455076/dev-yt/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.egg/yt/data_objects/data_containers.py", line 2001, in __init__
    if self._okay_to_serialize and self.serialize: self._serialize(node_name=self._node_name)
  File "/home/ux455076/dev-yt/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.egg/yt/data_objects/data_containers.py", line 970, in _serialize
    self._store_fields(self._key_fields, node_name, force)
  File "/home/ux455076/dev-yt/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.egg/yt/data_objects/data_containers.py", line 947, in _store_fields
    passthrough = True)
  File "/home/ux455076/dev-yt/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.egg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 241, in in_order
    f2(*args, **kwargs)
  File "/home/ux455076/dev-yt/lib/python2.7/site-packages/yt-2.4dev-py2.7-linux-x86_64.egg/yt/data_objects/hierarchy.py", line 278, in _reload_data_file
    self._data_file = h5py.File(self.__data_filename, self._data_mode)
  File "/home/ux455076/dev-yt/lib/python2.7/site-packages/h5py/_hl/files.py", line 150, in __init__
    fid = make_fid(name, mode, fapl)
  File "/home/ux455076/dev-yt/lib/python2.7/site-packages/h5py/_hl/files.py", line 45, in make_fid
    fid = h5f.open(name, h5f.ACC_RDONLY, fapl=plist)
  File "h5f.pyx", line 70, in h5py.h5f.open (h5py/h5f.c:1618)
IOError: unable to open file (File accessability: Unable to open file)
Exception AttributeError: "'EnzoHierarchy' object has no attribute '_data_file'" in <bound method EnzoHierarchy.__del__ of <yt.frontends.enzo.data_structures.EnzoHierarchy object at 0x32a4d10>> ignored