def startBasePopup(self, parent, title, modal, True):
TemporaryBasePopup.__init__(self,
parent=parent,
title=title,
modal=modal,
transient=True)
def __init__(self, parent, ccpChainLabelDict, ccpChainSeqIDCodes,
requireChainCode):
# Constructor doesn't do much except call body
# The parent is self.parent (parent of the popup)
self.chain = None
self.ccpChainLabelDict = ccpChainLabelDict
self.ccpChainSeqIDCodes = ccpChainSeqIDCodes
self.requireChainCode = requireChainCode
self.exportChainCode = {}
self.exportFirstSeqCode = {}
project = self.ccpChainLabelDict.values()[0].root
# modal = true means that it won't continue unless this one returns value
TemporaryBasePopup.__init__(self,
parent=parent,
title="Project '%s': " % project.name +
'Export chains',
modal=False,
transient=True)
def __init__(self, parent, peakList, format, dataDimRefs=None, order=None):
self.peakList = peakList
self.dataSource = self.peakList.dataSource
self.format = format
if dataDimRefs:
self.dataDimRefs = dataDimRefs
else:
self.dataDimRefs = []
numValidDims = 0
for dataDim in self.peakList.dataSource.dataDims:
if dataDim.className != 'SampledDataDim':
numValidDims += 1
self.numDim = numValidDims
self.order = order[self.numDim]
TemporaryBasePopup.__init__(
self,
parent=parent,
title="Project '%s': " % self.peakList.root.name +
"DataDimRef selection for PeakDims",
modal=False,
transient=True)
def __init__(self, parent, ccpChainLabelDict, ccpChainSeqIdCodes,
formatChains, formatChainList, formatChainDict,
defaultFormatChain):
# Constructor doesn't do much except call body
# The parent is self.parent (parent of the popup)
self.chain = None
self.formatChains = formatChains
self.ccpChainLabelDict = ccpChainLabelDict
self.ccpChainSeqIdCodes = ccpChainSeqIdCodes
self.formatChainList = formatChainList
self.formatChainDict = formatChainDict
self.localFormatChainDict = {}
self.defaultFormatChain = defaultFormatChain
self.ccpChainSeqIdDict = {}
self.ccpChainSeqCodeDict = {}
project = self.ccpChainLabelDict.values()[0].root
# modal = true means that it won't continue unless this one returns value
TemporaryBasePopup.__init__(self,
parent=parent,
title="Project '%s': " % project.name +
'Link chains',
modal=False,
transient=True)
def __init__(self, parent, matchName, chemAtomList, chemAtomDict, propagateList, ccpCode, shifts, matchType = 'Resonance', matchInfoPopup = None, selectedIndex = 4, title = 'Select resonance atom match', helpUrl = 'AtomSelect.html', headerLines = None, modal = False):
self.help_url = joinPath(getHelpUrlDir(),helpUrl)
# Constructor doesn't do much except call body
# The parent is self.parent (parent of the popup)
self.chemAtomOrSets = None
self.propagate = None
self.matchName = matchName
self.matchType = matchType
self.matchInfoPopup = matchInfoPopup
self.chemAtomList = chemAtomList
self.chemAtomDict = chemAtomDict
self.propagateList = propagateList
self.ccpCode = ccpCode
self.shifts = shifts
self.guiParent = parent
self.headerLines = headerLines
self.selectedIndex = selectedIndex
# modal = true means that it won't continue unless this one returns value
TemporaryBasePopup.__init__(self, parent=parent, title=title, modal=modal, transient=True)
def __init__(self, parent, selectionList, title = 'Select', text = 'Select', topText = None, dismissText = None, selected = None, selectionDict = None, urlFile = None, dismissButton = True, modal = False):
self.selectionList = selectionList
self.selectionDict = selectionDict
self.text = text
self.dismissButton = dismissButton
if dismissButton:
if dismissText:
self.dismissText = dismissText
else:
self.dismissText = 'dismiss'
self.topText = topText
self.isSelected = None
if not selected:
self.selectedIndex = 0
else:
self.selectedIndex = self.selectionList.index(selected)
if urlFile:
self.help_url = joinPath(getHelpUrlDir(),urlFile + '.html')
else:
self.help_url = None
TemporaryBasePopup.__init__(self,parent = parent, title = title, modal = modal, transient=True)
def __init__(self, parent, dataSource, peaks, order = None): self.dataSource = dataSource self.numDim = len(self.dataSource.dataDims) self.peaks = peaks self.dataDimRefs = [] self.order = order[self.numDim] TemporaryBasePopup.__init__(self,parent = parent, title = "Project '%s': " % dataSource.root.name + "DataDimRef selection for PeakDims", modal = False, transient=True)
def __init__(self, parent, project, createMoleculeDict): self.project = project self.localCreateMoleculeDict = createMoleculeDict self.createMoleculeDict = createMoleculeDict self.resetInfo() TemporaryBasePopup.__init__(self, parent=parent, title="Project '%s': " % project.name + 'Import original sequence', modal=False, transient=True)
def __init__(self, parent, experiment, fPars, linkDict=None):
self.experiment = experiment
self.fPars = fPars
self.linkDict = linkDict
TemporaryBasePopup.__init__(
self,
parent=parent,
title="Project '%s': " % experiment.root.name +
"Experiment dim selection for procPar reading",
modal=False,
transient=True)
def __init__(self, parent, chainList, chainAtomSetsDict):
self.chainList = chainList
self.chainAtomSetsDict = chainAtomSetsDict
self.resParentDict = {}
self.resParentList = []
self.resParentChainLabelDict = {}
self.resParentChainLabelList = {}
self.chainResonancesDict = {}
for resParent in self.chainAtomSetsDict.keys():
if isinstance(resParent, NmrConstraint.NmrConstraintStore):
strucGens = resParent.structureGenerations
strucGenSerials = [str(sg.serial) for sg in strucGens]
strucGenLabel = string.join(strucGenSerials, ',')
resParentLabel = "Constraint set %d (strucGens %s)" % (
resParent.serial, strucGenSerials)
else:
resParentLabel = "Nmr project %s" % resParent.name
self.resParentDict[resParentLabel] = resParent
self.resParentList.append(resParentLabel)
self.chainResonancesDict[resParent] = {}
self.resParentChainLabelDict[resParent] = {}
self.resParentChainLabelList[resParent] = []
for chain in self.chainList:
self.project = chain.root
if self.chainAtomSetsDict[resParent].has_key(
chain) and self.chainAtomSetsDict[resParent][chain]:
chainLabel = "Molecular system '%s':Chain '%s' (molecule '%s')" % (
chain.molSystem.code, chain.code, chain.molecule.name)
self.resParentChainLabelList[resParent].append(chainLabel)
self.resParentChainLabelDict[resParent][chainLabel] = chain
self.chainResonancesDict[resParent][chain] = []
# modal = true means that it won't continue unless this one returns value
TemporaryBasePopup.__init__(
self,
parent=parent,
title="Project '%s': " % self.project.name +
'Set status prochiral atoms/resonances',
modal=False,
transient=True)
def __init__(self,
parent,
formatNamesList,
formatNamesDict,
title='Link resonances setup'):
self.guiParent = parent
self.formatNamesList = formatNamesList
self.formatNamesDict = formatNamesDict
self.status = False
TemporaryBasePopup.__init__(self,
parent=parent,
title=title,
modal=False,
transient=False)
def __init__(self, parent, formula, bondNumber, chemCompInfo):
self.formula = formula
self.bondNumber = bondNumber
self.chemCompInfo = chemCompInfo
self.updated = 0
self.nonEntryAttributes = {
'molType': (PulldownMenu,['protein','DNA','RNA','carbohydrate','other']),
'hasStdChirality': (CheckButton,None)
}
TemporaryBasePopup.__init__(self, parent=parent, title='ChemComp creation', modal=False, transient=True)
def __init__(self,
parent,
infoTitle,
infoText,
infoList=None,
infoDict=None):
self.infoText = infoText
self.infoList = infoList
self.infoDict = infoDict
TemporaryBasePopup.__init__(self,
parent=parent,
title=infoTitle,
modal=False,
transient=True)
def __init__(self, parent, project, **keywds):
self.project = project
self.keywds = keywds
origCode = self.keywds['origCode']
del self.keywds['origCode']
TemporaryBasePopup.__init__(
self,
parent=parent,
title="Project '%s': " % project.name +
"ChemComp selection for code '%s'" % origCode,
modal=False,
transient=False,
width=200)
def __init__(self, parent, columnData, columnContents, title=None):
self.columnData = columnData
self.columnContents = columnContents
self.columnLen = len(self.columnData)
if not title:
title = "Column information selection"
print title
TemporaryBasePopup.__init__(self,
parent=parent,
title=title,
modal=False,
transient=True)
def __init__(self, parent, namingSysList=None, namingSysDict=None):
# Constructor doesn't do much except call body
# The parent is self.parent (parent of the popup)
self.namingSys = None
self.namingSysList = namingSysList
self.namingSysDict = namingSysDict
# modal = true means that it won't continue unless this one returns value
TemporaryBasePopup.__init__(self,
parent=parent,
title='Choose namingSys',
modal=False,
transient=True)
def __init__(self, parent, project, numDim=None, topText=None, expName=''):
self.parent = parent
self.project = project
self.numDim = numDim
self.topText = topText
self.skip = 1
self.expName = expName
setCurrentStore(project, 'ChemElementStore')
TemporaryBasePopup.__init__(self,
parent=parent,
title="Project '%s': " % project.name +
'Create Experiment',
modal=False,
transient=True)
def __init__(self, parent, peakList, format, dataDimRefs=None, order=None):
self.peakList = peakList
self.dataSource = self.peakList.dataSource
self.format = format
if dataDimRefs:
self.dataDimRefs = dataDimRefs
else:
self.dataDimRefs = []
self.numDim = len(self.dataSource.dataDims)
self.order = order[self.numDim]
TemporaryBasePopup.__init__(
self,
parent=parent,
title="Project '%s': " % self.peakList.root.name +
"DataDimRef selection for PeakDims",
modal=False,
transient=True)
def __init__(self, parent, chemCompInfo, chemCompAtoms, chemCompBonds):
self.chemCompInfo = chemCompInfo
self.chemCompAtoms = chemCompAtoms
self.chemCompBonds = chemCompBonds
self.obligatoryAtoms = []
for molTypeTuple in standardBackboneAtoms.keys():
if self.chemCompInfo[0][1] in molTypeTuple:
for atomName in standardBackboneAtoms[molTypeTuple]:
if atomName not in self.obligatoryAtoms:
self.obligatoryAtoms.append(atomName)
self.nonEntryAttributes = {
'chirality': (PulldownMenu,['R','S','unknown']),
'waterExchangeable': (CheckButton,False)
}
TemporaryBasePopup.__init__(self, parent=parent, title='ChemComp atom and bond creation', modal=False, transient=True)
def __init__(self, parent, valueList, valueInfo, title = 'Entry list', topText = 'Enter values', dismissText = None, urlFile = None, dismissButton = True, conversionFunc = None, modal = False):
self.valueList = valueList
self.valueInfo = valueInfo
self.values = []
self.dismissButton = dismissButton
self.conversionFunc = conversionFunc
if dismissButton:
if dismissText:
self.dismissText = dismissText
else:
self.dismissText = 'dismiss'
self.topText = topText
if urlFile:
self.help_url = joinPath(getHelpUrlDir(),urlFile + '.html')
else:
self.help_url = None
TemporaryBasePopup.__init__(self,parent = parent, title = title, modal = modal, transient=True)