# HG changeset patch # User sanbi-uwc # Date 1483967940 18000 # Node ID 8553432eb6d868e3af71f917756d4f6f84d58ebf # Parent 13567403bb2791d0e1fdb2374ce729ea602e6ade planemo upload for repository https://github.com/zipho/novo_align commit 4db125fcd73327813d7bd511852bbe9ffc68a25c diff -r 13567403bb27 -r 8553432eb6d8 novo_align.py --- a/novo_align.py Thu Dec 15 07:59:13 2016 -0500 +++ b/novo_align.py Mon Jan 09 08:19:00 2017 -0500 @@ -39,8 +39,9 @@ args = parser.parse_args() # a dirty way of referencing the file - index_file_path = args.index_filename + "/" + args.index_filename.split("/")[-1] + index_file_path = args.index_filename # not sure of the logic here: + "/" + args.index_filename.split("/")[-1] novo_align(args.output_filename, index_file_path, args.forward_filename, args.reverse_filename) + if __name__ == "__main__": main() diff -r 13567403bb27 -r 8553432eb6d8 novo_align.xml --- a/novo_align.xml Thu Dec 15 07:59:13 2016 -0500 +++ b/novo_align.xml Mon Jan 09 08:19:00 2017 -0500 @@ -1,46 +1,50 @@ - + Tool to run the Novo Align mapping tool samtools - novocraft + novoalign - - - - - + + + + + + + + + + +