def getNodeDefinitionSourceCode(self, networkName, indent="",
ignoreOriginal=False):
"""subclass baseclass method to add lines to load the molecule in
Pmv if it is not loaded yet"""
lines = []
if self.network.filename is not None:
lNetworkDir = os.path.dirname(os.path.abspath(self.network.filename))
lFileName = relpath(lNetworkDir, os.path.abspath(self.mol.parser.filename))
else:
lFileName = self.mol.parser.filename
# we save the name of the file in a path relatives to the network
s00 = 'import os\n'
s01 = 'from mglutil.util.relpath import rel2abs\n'
s02 = "lRelFileName = '%s'\n"%lFileName
# we prepare the readding with an absolut path
s03 = 'lNetworkDir = os.path.dirname(os.path.abspath(%s.filename))\n'%networkName
s04 = 'lAbsFileName = rel2abs(lRelFileName, lNetworkDir)\n'
s1 = 'mol = %s.editor.vf.loadMoleculeIfNeeded(lAbsFileName)\n'%networkName
s2 = 'assert mol\n'
lines.append(indent+s00)
lines.append(indent+s01)
lines.append(indent+s02)
lines.append(indent+s03)
lines.append(indent+s04)
lines.append(indent+s1)
lines.append(indent+s2)
lines.extend(NetworkNode.getNodeDefinitionSourceCode(
self, networkName, indent, ignoreOriginal) )
return lines
def getNodeDefinitionSourceCode(self,
networkName,
indent="",
ignoreOriginal=False):
"""subclass baseclass method to add lines to load the molecule in
Pmv if it is not loaded yet"""
if self.network.filename is not None:
lNetworkDir = os.path.dirname(
os.path.abspath(self.network.filename))
elif hasattr(self.network, 'macroNode') \
and self.network.macroNode.network.filename is not None:
lNetworkDir = os.path.dirname(
os.path.abspath(self.network.macroNode.network.filename))
else:
lNetworkDir = None
assert False, "my guess is we don't go here"
lines = []
molecules = []
for mol in self.set.top.uniq().data:
# we save the name of the file in a path relatives to the network
if lNetworkDir is not None:
lFileName = relpath(lNetworkDir,
os.path.abspath(mol.parser.filename))
else:
lFileName = mol.parser.filename
molecules.append(lFileName)
# we prepare the readding with an absolut path
s0 = 'import os\n'
s1 = 'from mglutil.util.relpath import rel2abs\n'
s2 = 'lNetworkDir = os.path.dirname(os.path.abspath(%s.filename))\n' % networkName
s3 = 'mols = %s\n' % molecules
s4 = 'for m in mols:\n'
s5 = ' lAbsFileName = rel2abs(m, lNetworkDir)\n'
s6 = ' mol = %s.editor.vf.loadMoleculeIfNeeded(lAbsFileName)\n' % networkName
s7 = ' assert mol\n'
s8 = 'selString = "%s"\n' % self.selString
s9 = '%s.editor.vf.loadModule("selectionCommands")\n' % networkName
s10 = '%s.editor.vf.createSetIfNeeded(selString, "%s")\n' % (
networkName, self.name)
s11 = 'from Pmv.selectionCommands import sets__\n'
lines.append(indent + s0)
lines.append(indent + s1)
lines.append(indent + s2)
lines.append(indent + s3)
lines.append(indent + s4)
lines.append(indent + s5)
lines.append(indent + s6)
lines.append(indent + s7)
lines.append(indent + s8)
lines.append(indent + s9)
lines.append(indent + s10)
lines.append(indent + s11)
lines.extend(
NetworkNode.getNodeDefinitionSourceCode(self, networkName, indent,
ignoreOriginal))
return lines
def getNodeDefinitionSourceCode(self,
networkName,
indent="",
ignoreOriginal=False):
"""subclass baseclass method to add lines to load the molecule in
Pmv if it is not loaded yet"""
lines = []
if self.network.filename is not None:
lNetworkDir = os.path.dirname(
os.path.abspath(self.network.filename))
lFileName = relpath(lNetworkDir,
os.path.abspath(self.mol.parser.filename))
elif hasattr(self.network, 'macroNode') \
and self.network.macroNode.network.filename is not None:
lNetworkDir = os.path.dirname(
os.path.abspath(self.network.macroNode.network.filename))
lFileName = relpath(lNetworkDir,
os.path.abspath(self.mol.parser.filename))
else:
lFileName = self.mol.parser.filename
# we save the name of the file in a path relatives to the network
s00 = 'import os\n'
s01 = 'from mglutil.util.relpath import rel2abs\n'
lFileNameUnix = lFileName.replace('\\', '/')
s02 = "lRelFileName = '%s'\n" % lFileNameUnix
# we prepare the readding with an absolut path
s03 = 'lNetworkDir = os.path.dirname(os.path.abspath(%s.filename))\n' % networkName
s04 = 'lAbsFileName = rel2abs(lRelFileName, lNetworkDir)\n'
s1 = 'mol = %s.editor.vf.loadMoleculeIfNeeded(lAbsFileName)\n' % networkName
s2 = 'assert mol\n'
lines.append(indent + s00)
lines.append(indent + s01)
lines.append(indent + s02)
lines.append(indent + s03)
lines.append(indent + s04)
lines.append(indent + s1)
lines.append(indent + s2)
lines.extend(
NetworkNode.getNodeDefinitionSourceCode(self, networkName, indent,
ignoreOriginal))
return lines
def getNodeDefinitionSourceCode(self, networkName, indent="",
ignoreOriginal=False):
"""subclass baseclass method to add lines to load the molecule in
Pmv if it is not loaded yet"""
if self.network.filename is not None:
lNetworkDir = os.path.dirname(os.path.abspath(self.network.filename))
elif hasattr(self.network, 'macroNode') \
and self.network.macroNode.network.filename is not None:
lNetworkDir = os.path.dirname(os.path.abspath(self.network.macroNode.network.filename))
else:
lNetworkDir = None
assert False, "my guess is we don't go here"
lines = []
molecules = []
for mol in self.set.top.uniq().data:
# we save the name of the file in a path relatives to the network
if lNetworkDir is not None:
lFileName = relpath(lNetworkDir, os.path.abspath(mol.parser.filename))
else:
lFileName = mol.parser.filename
molecules.append(lFileName)
# we prepare the readding with an absolut path
s0 = 'import os\n'
s1 = 'from mglutil.util.relpath import rel2abs\n'
s2 = 'lNetworkDir = os.path.dirname(os.path.abspath(%s.filename))\n'%networkName
s3 = 'mols = %s\n'%molecules
s4 = 'for m in mols:\n'
s5 = ' lAbsFileName = rel2abs(m, lNetworkDir)\n'
s6 = ' mol = %s.editor.vf.loadMoleculeIfNeeded(lAbsFileName)\n'%networkName
s7 = ' assert mol\n'
s8 = 'selString = "%s"\n'%self.selString
s9 = '%s.editor.vf.loadModule("selectionCommands")\n'%networkName
s10 = '%s.editor.vf.createSetIfNeeded(selString, "%s")\n'%(networkName, self.name)
s11 = 'from Pmv.selectionCommands import sets__\n'
lines.append(indent+s0)
lines.append(indent+s1)
lines.append(indent+s2)
lines.append(indent+s3)
lines.append(indent+s4)
lines.append(indent+s5)
lines.append(indent+s6)
lines.append(indent+s7)
lines.append(indent+s8)
lines.append(indent+s9)
lines.append(indent+s10)
lines.append(indent+s11)
lines.extend(NetworkNode.getNodeDefinitionSourceCode(
self, networkName, indent, ignoreOriginal) )
return lines
