Mercurial > repos > yating-l > jbrowsearchivecreator

comparison util/subtools.py @ 47:1eb4adefd747 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/goeckslab/jbrowse-archive-creator.git commit 97a743ee6d228c8a0a5778ec3cb6f68a2e22c8e3
author yating-l
date Tue, 19 Jun 2018 17:39:12 -0400
parents 061da5d3a219
children 804e7217f27c
comparison
equal deleted inserted replaced
46:061da5d3a219 47:1eb4adefd747
381 array_call = ['prepare-refseqs.pl', '--indexed_fasta', fastaFile, '--out', outputFolder] 381 array_call = ['prepare-refseqs.pl', '--indexed_fasta', fastaFile, '--out', outputFolder]
382 p = _handleExceptionAndCheckCall(array_call) 382 p = _handleExceptionAndCheckCall(array_call)
383 return p 383 return p
384 384
385 def generate_names(outputFolder, nameIndexTrackList, hashBits=4): 385 def generate_names(outputFolder, nameIndexTrackList, hashBits=4):
386 array_call = ['generate-names.pl', '--hashBits', hashBits, '-v', '--completionLimit', '0', '--out', outputFolder] 386 array_call = ['generate-names.pl', '--hashBits', str(hashBits), '-v', '--completionLimit', '0', '--out', outputFolder]
387 if nameIndexTrackList: 387 array_call.append('--tracks')
388 array_call.append('--tracks') 388 array_call.append(','.join(nameIndexTrackList))
389 array_call.append(','.join(nameIndexTrackList))
390 p = _handleExceptionAndCheckCall(array_call) 389 p = _handleExceptionAndCheckCall(array_call)
391 return p 390 return p
392 391
393 def validateFiles(input_file, chrom_sizes_file_name, file_type, options=None): 392 def validateFiles(input_file, chrom_sizes_file_name, file_type, options=None):
394 """ 393 """