def testIsRootDirectory(self):
self.assertTrue( isRootDirectory("linkNmrStarData/"))
self.assertTrue( isRootDirectory("linkNmrStarData//"))
self.assertFalse( isRootDirectory("linkNmrStarData/ccp/"))
self.assertFalse( isRootDirectory("linkNmrStarData/ccp//"))
def initCyana(project, cyanaFolder, modelCount = None, convention=None, coordinateConvention=None, autoDetectFormat=True):
"""
Return True on success or None on failure
cyanaFolder can be a directory or a .tgz.
"""
# nTdebug("In %s found convention %s" % ( getCallerName(), convention))
if not cyanaFolder:
nTerror("cyanaFolder not specified")
return None
# end if
if not os.path.exists( cyanaFolder ):
nTerror('initCyana: cyanaFolder "%s" does not exist', cyanaFolder)
return None
# end if
if os.path.isfile(cyanaFolder) and ( cyanaFolder.endswith(".tgz") or cyanaFolder.endswith(".tar.gz")):
try: # If present the target will be removed so it doesn't need to be overwritten.
rmtree(project.name)
nTmessage("Removed directory: %s" % project.name)
except:
pass
# Get a TarFile class.
cyanaRootDirectory = None
tar = tarfile.open(cyanaFolder, "r:gz")
tarFileNames = []
for itar in tar:
# nTdebug("working on: " + itar.name)
if os.path.exists(itar.name):
nTerror("Will not untar %s by overwriting current copy" % itar.name)
return None
if itar.name.count('._'):
# nTdebug("Skipping special hidden file: " + itar.name)
continue
tar.extract(itar.name, '.') # itar is a TarInfo object
if not cyanaRootDirectory: # pick only the first one.
tarFileNames.append(itar.name)
if isRootDirectory(itar.name):
cyanaRootDirectory = itar.name.replace("/", '')
if not cyanaRootDirectory:
nTerror("Skipping potential cyanaRootDirectory")
# end if
# end if
# end if
# end for
tar.close()
if not cyanaRootDirectory:
# in python 2.6 tarfile class doesn't append '/' in root dir anymore
# sorting by length and taking the shortest, likely the root dir.
tarFileNames.sort()
cyanaRootDirectory = tarFileNames[0]
if not os.path.isdir(cyanaRootDirectory):
nTerror("No cyanaRootDirectory found in gzipped tar file: %s" % cyanaFolder)
nTerror("First listed directory after sorting: %s" % cyanaRootDirectory)
return None
# end if
# end if
if cyanaRootDirectory != project.name:
nTmessage("Moving Cyana directory from [%s] to [%s]" % (cyanaRootDirectory, project.name))
move(cyanaRootDirectory, project.name)
# end if
cyanaFolder = project.name # Now it is a folder.
# end if
if not os.path.exists(cyanaFolder):
nTerror("cyanaFolder '%s' not found", cyanaFolder)
return None
# end if
if not os.path.isdir(cyanaFolder):
nTerror("cyanaFolder '%s' not not a directory", cyanaFolder)
return None
# end if
sourceList = cyana2cing( project, cyanaFolder,
convention=convention, coordinateConvention=coordinateConvention,
useAllInDirectory=True, autoDetectFormat=autoDetectFormat)
return sourceList
def testIsRootDirectory(self):
self.assertTrue(isRootDirectory("linkNmrStarData/"))
self.assertTrue(isRootDirectory("linkNmrStarData//"))
self.assertFalse(isRootDirectory("linkNmrStarData/ccp/"))
self.assertFalse(isRootDirectory("linkNmrStarData/ccp//"))