def _validateGenome(cls, choices, validateBinaryTracksIfPresent=True):
from quick.multitrack.MultiTrackCommon import getGSuiteFromGalaxyTN
from quick.application.ProcTrackOptions import ProcTrackOptions
allGSuiteGalaxyTNs = [
getattr(choices, key) for key in cls.GSUITE_FILE_OPTIONS_BOX_KEYS
]
if all(allGSuiteGalaxyTNs):
if (not cls._allowGenomeOverride(choices)
) and cls._getNumUniquelySpecifiedGenomes(choices) > 1:
return cls.ERROR_GENOME_BUILD_MISMATCH + ', '.join(
cls._getGsuiteGenomes(choices))
errorStr = GeneralGuiTool._checkGenome(choices.genome)
if errorStr:
return errorStr
if not cls._allowMultipleGenomes(
choices) and choices.genome == GSuiteConstants.MULTIPLE:
return cls.ERROR_MULTIPLE_GENOMES_NOT_ALLOWED
if validateBinaryTracksIfPresent:
for galaxyTN in allGSuiteGalaxyTNs:
gSuite = getGSuiteFromGalaxyTN(galaxyTN)
if gSuite.fileFormat == GSuiteConstants.PREPROCESSED and gSuite.location == GSuiteConstants.LOCAL:
for gSuiteTrack in gSuite.allTracks():
if not ProcTrackOptions.isValidTrack(
choices.genome, gSuiteTrack.trackName,
True):
return cls.ERROR_PREPROCESSED_TRACK_INVALID % gSuiteTrack.title
def validateAndReturnErrors(choices):
errorStr = GeneralGuiTool._checkGenome(choices.genome)
if errorStr:
return errorStr
if not choices.seqs:
return 'Please enter at least one sequence'
def validateAndReturnErrors(choices):
'''
Should validate the selected input parameters. If the parameters are not
valid, an error text explaining the problem should be returned. The GUI
then shows this text to the user (if not empty) and greys out the
execute button (even if the text is empty). If all parameters are valid,
the method should return None, which enables the execute button.
'''
if choices.selectGenome == 'Yes':
errorStr = GeneralGuiTool._checkGenome(choices.genome)
if errorStr:
return errorStr
if not any(val is not None for val in choices.history.values()):
return 'Please select at least one history element'
def validateAndReturnErrors(cls, choices):
#if choices[0] == 'Text' and choices[1].strip() == '':
# return 'You have to enter a search text'
if cls.exception:
return cls.exception
if choices.search in [None, '--Select--'
] or choices.subCategory in [None, '--Select--']:
return ''
#if choices.outputType == 'Categorized Search for Tracks':
if not choices.filetype in [None, '', []] and len([
x for x, selected in choices.filetype.iteritems() if selected
]) == 0:
return 'You have to select at least one file type'
if choices.downloadAndPreprocess == 'Yes':
errorStr = cls._checkGenome(choices.genome)
if errorStr:
return errorStr
return GeneralGuiTool._checkGenome(choices.genome)
