def restoreQueeny100( project, tmp=None ):
"""
Restore queeny results from sml file.
Return True on error
"""
if project is None:
nTmessage("restoreQueeny100: No project defined")
return True
if project.molecule is None:
return False # Gracefully returns
queenyDefs = project.getStatusDict(constants.QUEENY_KEY)
if not queenyDefs.completed: # old definition
nTdebug('restoreQueeny100: no queeny completed')
return False # Return gracefully
path = project.validationPath( 'Queeny')
if not path.exists():
ntu.nTwarning('restoreQueeny100: directory "%s" with prior queeny data not found', path)
else:
# delete the data and run again
os.rename(path, project.path() / cdefs.directories.version1 / 'Queeny')
#end if
# regenerate the data
project.runQueeny()
nTmessage('restoreQueeny100: Re-generated Queeny results')
return False
def __init__(self,
filename=None,
minLength=-1,
commentString=None,
minNF=-1,
skipHeaderLines=0,
separator=None):
_AwkLike.__init__(self,
minLength=minLength,
commentString=commentString,
minNF=minNF,
skipHeaderLines=skipHeaderLines,
separator=separator)
self.f = None
if filename == None:
self.f = sys.stdin
self.FILENAME = 'stdin' # pylint: disable=C0103
else:
self.FILENAME = filename
if not os.path.exists(filename):
ntu.nTerror('AwkLike: Failed to find file "%s"' % filename)
self.f = None
else:
self.f = open(filename, 'r')
def close(self):
"""internal routine"""
if self.FILENAME is None:
ntu.nTerror('AwkLike.close: Cannot close file')
return
if self.f is None:
ntu.nTerror('AwkLike.close: Cannot close "%s"', self.FILENAME)
return
if self.f is not sys.stdin:
self.f.close()
self.f = None
def close(self):
"""internal routine"""
if self.FILENAME is None:
ntu.nTerror('AwkLike.close: Cannot close file')
return
if self.f is None:
ntu.nTerror('AwkLike.close: Cannot close "%s"', self.FILENAME)
return
if self.f is not sys.stdin:
self.f.close()
self.f = None
def float(self, field):
"""Return field converted to float or NaN on error """
try:
return float(self[field])
except ValueError:
ntu.nTerror(
'AwkLike: expected float for "%s" (file: %s, line %d: "%s")',
self[field], self.FILENAME, self.NR, self[0])
except IndexError:
ntu.nTerror(
'AwkLike: invalid field number "%d" (file: %s, line %d: "%s")',
field, self.FILENAME, self.NR, self[0])
return fpconst.NaN
def __init__(self, filename=None, minLength=-1, commentString=None, minNF=-1,
skipHeaderLines=0, separator=None):
_AwkLike.__init__(self, minLength=minLength, commentString=commentString, minNF=minNF,
skipHeaderLines=skipHeaderLines, separator=separator)
self.f = None
if filename is None:
self.f = sys.stdin
self.FILENAME = 'stdin' # pylint: disable=C0103
else:
self.FILENAME = filename
if not os.path.exists(filename):
ntu.nTerror('AwkLike: Failed to find file "%s"' % filename)
self.f = None
else:
self.f = open(filename, 'r')
def importPlugin(pluginCodeModule, pluginName):
"""
Import the plugin pluginName present in PluginCode directory.
Adds reference to global plugins dict
Returns None on error
"""
isInstalled = False
if plugins.has_key(pluginName):
try:
plugin = plugins[pluginName]
# nTdebug("reloading same module just to see it change")
reload(plugin.module)
except ImportWarning, extraInfo: # Disable after done debugging; can't use nTdebug yet.
ntu.nTmessage(
"importPlugin: Skipping reload of an optional compound (please recode to use SkipTest): %s" % extraInfo
)
# Internally we need to know if we're called by nosetests or by regular call.
except SkipTest, extraInfo:
ntu.nTmessage("importPlugin: Skipping reload report of an optional compound: %s" % extraInfo)
def float(self, field):
"""Return field converted to float or NaN on error """
try:
return float(self[field])
except ValueError:
ntu.nTerror('AwkLike: expected float for "%s" (file: %s, line %d: "%s")',
self[field],
self.FILENAME,
self.NR,
self[0]
)
except IndexError:
ntu.nTerror('AwkLike: invalid field number "%d" (file: %s, line %d: "%s")',
field,
self.FILENAME,
self.NR,
self[0]
)
return fpconst.NaN
"""
isInstalled = False
if plugins.has_key(pluginName):
try:
plugin = plugins[pluginName]
# nTdebug("reloading same module just to see it change")
reload(plugin.module)
except ImportWarning, extraInfo: # Disable after done debugging; can't use nTdebug yet.
ntu.nTmessage(
"importPlugin: Skipping reload of an optional compound (please recode to use SkipTest): %s" % extraInfo
)
# Internally we need to know if we're called by nosetests or by regular call.
except SkipTest, extraInfo:
ntu.nTmessage("importPlugin: Skipping reload report of an optional compound: %s" % extraInfo)
except Exception:
ntu.nTtracebackError()
ntu.nTexception("importPlugin: A reload failed for " + pluginName)
return None
# module = __import__( moduleName, globals(), locals(), [] )
# ntu.nTmessage('==> Attempting import plugin ' + pluginName )
# by the manuals words:
# "However, when a non-empty fromlist argument is given, the module named by name is returned."
pluginCodeModulePackage = None
try:
# JFD changed from default to zero which means to only try absolute imports.
pluginCodeModulePackage = __import__(pluginCodeModule, globals(), locals(), [pluginName])
isInstalled = True
ntu.nTdebug("importPlugin: Installed plugin: [%s]" % pluginName)
except ImportWarning:
ntu.nTdebug(
"importPlugin: Skipping import of an optional plugin: [%s] (please recode to use SkipTest)" % pluginName
def printit(self):
ntu.nTmessage('==> FILENAME=%s NR=%d NF=%d' % (self.FILENAME, self.NR, self.NF))
for i, field in self.enumerate(): # can't use enumerate as that will loop through the 'lines'
ntu.nTmessage('%2d >%s<' % (i, self[i]))
def printit(self):
ntu.nTmessage('==> FILENAME=%s NR=%d NF=%d' %
(self.FILENAME, self.NR, self.NF))
for i, field in self.enumerate(
): # can't use enumerate as that will loop throught the 'lines'
ntu.nTmessage('%2d >%s<' % (i, self[i]))
