Mercurial > repos > yating-l > jbrowsearchivecreator

comparison trackObject.py @ 15:671231da45f9 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit 594c5fa1e3cdb378ecf6b5490ec2cbac5fa8a61e-dirty
author yating-l
date Wed, 05 Jul 2017 15:47:15 -0400
parents b5d7748d1b7b
children
comparison
equal deleted inserted replaced
14:f4a9197281d5 15:671231da45f9
54 print "Cannot move file, error({0}: {1})".format(err2.errno, err2.strerror) 54 print "Cannot move file, error({0}: {1})".format(err2.errno, err2.strerror)
55 elif dataType == 'bedSimpleRepeats': 55 elif dataType == 'bedSimpleRepeats':
56 bedToGff3.bedToGff3(dataFile, self.chrom_size, 'trfbig', des_path) 56 bedToGff3.bedToGff3(dataFile, self.chrom_size, 'trfbig', des_path)
57 elif dataType == 'bedSpliceJunctions': 57 elif dataType == 'bedSpliceJunctions':
58 bedToGff3.bedToGff3(dataFile, self.chrom_size, 'regtools', des_path) 58 bedToGff3.bedToGff3(dataFile, self.chrom_size, 'regtools', des_path)
59 elif dataType == 'bigpsl':
60 bedToGff3.bedToGff3(dataFile, self.chrom_size, 'blat', des_path)
59 elif dataType == 'blastxml': 61 elif dataType == 'blastxml':
60 blastxmlToGff3.blastxml2gff3(dataFile, des_path) 62 blastxmlToGff3.blastxml2gff3(dataFile, des_path)
61 elif dataType == 'gtf': 63 elif dataType == 'gtf':
62 utils.gtfToGff3(dataFile, des_path, self.chrom_size) 64 utils.gtfToGff3(dataFile, des_path, self.chrom_size)
63 track['fileName'] = fileName 65 track['fileName'] = fileName