Mercurial > repos > pjbriggs > amplicon_analysis_pipeline

comparison amplicon_analysis_pipeline.py @ 25:fd65832d1074 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/pjbriggs/Amplicon_analysis-galaxy commit 34034189622f4cf14edd12a4de43739c37b50730-dirty
author pjbriggs
date Thu, 30 Aug 2018 08:33:11 -0400
parents fe354f5dd0ee
children f0917c340f13
comparison
equal deleted inserted replaced
24:fe354f5dd0ee 25:fd65832d1074
241 relabel_fasta_path = os.path.join(os.path.realpath(__file__), 241 relabel_fasta_path = os.path.join(os.path.realpath(__file__),
242 "relabel_fasta.py") 242 "relabel_fasta.py")
243 fasta_number_path = os.path.join(os.path.abspath("bin"), 243 fasta_number_path = os.path.join(os.path.abspath("bin"),
244 "fasta_number.py") 244 "fasta_number.py")
245 os.symlink(relabel_fasta_path,fasta_number_path) 245 os.symlink(relabel_fasta_path,fasta_number_path)
246 print "-- linked %s to %s" % (relabel_fasta_path,
247 fasta_number_path)
246 248
247 # Construct the pipeline command 249 # Construct the pipeline command
248 print "Amplicon analysis: constructing pipeline command" 250 print "Amplicon analysis: constructing pipeline command"
249 pipeline = PipelineCmd("Amplicon_analysis_pipeline.sh") 251 pipeline = PipelineCmd("Amplicon_analysis_pipeline.sh")
250 if args.forward_pcr_primer: 252 if args.forward_pcr_primer: