Mercurial > repos > dfornika > data_manager_build_mash_sketch
changeset 5:f4bc3b60a16d draft
planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/data_managers/data_manager_build_mash_sketch/ commit 423cf96266f6ac433052ff72edb1397502313010-dirty
| author | dfornika |
|---|---|
| date | Thu, 25 Jul 2019 13:59:05 -0400 |
| parents | bb52c7f2c2a2 |
| children | 0ea6c4c00aab |
| files | data_manager/mash_build_sketch.py |
| diffstat | 1 files changed, 3 insertions(+), 1 deletions(-) [+] |
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--- a/data_manager/mash_build_sketch.py Thu Jul 25 13:55:23 2019 -0400 +++ b/data_manager/mash_build_sketch.py Thu Jul 25 13:59:05 2019 -0400 @@ -30,7 +30,7 @@ '-p', mash_args['threads'], '-k', mash_args['kmer_size'], '-s', mash_args['sketch_size'], - '-i', mash_args['input_seq'], + '-i', mash_args['input'], '-o', 'sketch', ] @@ -62,6 +62,7 @@ parser = argparse.ArgumentParser() parser.add_argument('data_manager_json') parser.add_argument('--threads', dest='threads', default=1, help='threads' ) + parser.add_argument('--input', dest='input', help='Plasmid Assemblies (.fasta)') parser.add_argument('--kmer-size', dest='kmer_size', help='K-mer size' ) parser.add_argument('--sketch-size', dest='sketch_size', help='Sketch size' ) parser.add_argument('--database-name', dest='database_name', help='Database Name') @@ -72,6 +73,7 @@ target_directory = data_manager_input['output_data'][0]['extra_files_path'] mash_args = { + 'input': args.input, 'kmer_size': args.kmer_size, 'sketch_size': args.kmer_size, 'threads': args.threads,