def removeOutdatedPreProcessedFiles(genome, trackName, allowOverlaps, mode):
collector = PreProcMetaDataCollector(genome, trackName)
if PreProcessUtils.preProcFilesExist(genome, trackName, allowOverlaps) and not \
collector.hasRemovedPreProcFiles(allowOverlaps):
dirPath = createDirPath(trackName, genome, allowOverlaps=allowOverlaps)
assert dirPath.startswith(Config.PROCESSED_DATA_PATH), \
"Processed data path '%s' does not start with '%s'" % \
(dirPath, Config.PROCESSED_DATA_PATH)
if mode == 'Real':
print 'Removing outdated preprocessed data: ', dirPath
for fn in os.listdir(dirPath):
fullFn = os.path.join(dirPath, fn)
if os.path.isfile(fullFn):
os.unlink(fullFn)
if os.path.isdir(fullFn):
if PreProcessUtils._isOldTypeChromDirectory(fullFn, genome):
shutil.rmtree(fullFn)
else:
print 'Would now have removed outdated preprocessed data if real run: ', dirPath
collector.updateRemovedPreProcFilesFlag(allowOverlaps, True)
if mode == 'Real':
ti = TrackInfo(genome, trackName)
ti.resetTimeOfPreProcessing()
