def updateAttrRefImage(self, data=None):
h5grp = EDPluginHDF5StackImagesv10.createStructure(ffx.HDF5, str(self.internalHdf5))
with EDPluginHDF5StackImagesv10.getFileLock(ffx.HDF5):
if (self.REFERENCE_FRAME_NAME not in h5grp) and (data is not None):
h5grp[self.REFERENCE_FRAME_NAME] = data
if self.REFERENCE_FRAME_NAME in h5grp:
referenceDS = h5grp[self.REFERENCE_FRAME_NAME]
if isinstance(self.reference, int):
referenceDS.attrs["origin"] = self.reference
else:
referenceDS.attrs["origin"] = str(self.reference)
else:
EDVerbose.WARNING("Reference frame is not in %s:%s attr not updated" % (self.HDF5, self.internalHdf5))
def updateAttrRefImage(self, data=None):
h5grp = EDPluginHDF5StackImagesv10.createStructure(ffx.HDF5, str(self.internalHdf5))
with EDPluginHDF5StackImagesv10.getFileLock(ffx.HDF5):
if (self.REFERENCE_FRAME_NAME not in h5grp) and (data is not None):
h5grp[self.REFERENCE_FRAME_NAME] = data
if self.REFERENCE_FRAME_NAME in h5grp:
referenceDS = h5grp[self.REFERENCE_FRAME_NAME ]
if isinstance(self.reference, int):
referenceDS.attrs["origin"] = self.reference
else:
referenceDS.attrs["origin"] = str(self.reference)
else:
EDVerbose.WARNING("Reference frame is not in %s:%s attr not updated" % (self.HDF5, self.internalHdf5))
newerOnly = True
debug = False
for i in sys.argv[1:]:
if i.lower().find("-online") in [0, 1]:
mode = "dirwatch"
elif i.lower().find("-all") in [0, 1]:
newerOnly = False
elif i.lower().find("-debug") in [0, 1]:
debug = True
if os.path.exists(i):
paths.append(os.path.abspath(i))
if len(paths) == 0:
if mode == "OffLine":
print "This is the HDF5 3D image stacker application of EDNA, \nplease give a path to process offline or the option:\n\
--online to process online incoming data in the given directory.\n\
--all to process all existing files (unless they will be excluded)\n\
--debug to turn on debugging mod in EDNA"
sys.exit()
else:
paths = [os.getcwd()]
edna = EDParallelExecute(EDNAPluginName,
fileName2xml,
_functXMLerr=XMLerr,
_bVerbose=True,
_bDebug=debug)
edna.runEDNA(paths, mode, newerOnly)
print "Back in main"
EDPluginHDF5StackImagesv10.closeAll()
newerOnly = True
debug = False
iNbCPU = None
for i in sys.argv[1:]:
if i.lower().find("-online") in [0, 1]:
mode = "dirwatch"
elif i.lower().find("-all") in [0, 1]:
newerOnly = False
elif i.lower().find("-debug") in [0, 1]:
debug = True
elif i.lower().find("-ncpu") in [0, 1]:
iNbCPU = int(i.split("=", 1)[1])
elif os.path.exists(i):
paths.append(os.path.abspath(i))
if len(paths) == 0:
if mode == "OffLine":
print "This is the HDF5 3D image stacker application of EDNA, \nplease give a path to process offline or the option:\n\
--online to process online incoming data in the given directory.\n\
--all to process all existing files (unless they will be excluded)\n\
--debug to turn on debugging mod in EDNA"
sys.exit()
else:
paths = [os.getcwd()]
edna = EDParallelExecute(EDNAPluginName, fileName2xml, _functXMLerr=XMLerr, _bVerbose=True, _bDebug=debug, _iNbThreads=iNbCPU)
edna.runEDNA(paths, mode , newerOnly)
print "Back in main"
EDPluginHDF5StackImagesv10.closeAll()
