Mercurial > repos > greg > gene_family_phylogeny_builder
changeset 5:f73151ec679b draft
Uploaded
| author | greg |
|---|---|
| date | Tue, 11 Apr 2017 13:18:16 -0400 |
| parents | b78f5b0d0805 |
| children | 0e55cec5ec6b |
| files | gene_family_phylogeny_builder.py |
| diffstat | 1 files changed, 2 insertions(+), 2 deletions(-) [+] |
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--- a/gene_family_phylogeny_builder.py Tue Apr 11 13:13:53 2017 -0400 +++ b/gene_family_phylogeny_builder.py Tue Apr 11 13:18:16 2017 -0400 @@ -8,7 +8,7 @@ parser = argparse.ArgumentParser() -parser.add_argument('--alignments_type', dest='alignments_type', help='Input alignments type produced by the GeneFamilyAligner') +parser.add_argument('--alignment_type', dest='alignment_type', help='Input alignments type produced by the GeneFamilyAligner') parser.add_argument('--bootstrap_replicates', dest='bootstrap_replicates', type=int, default=None, help='Number of replicates for rapid bootstrap analysis') parser.add_argument('--config_dir', dest='config_dir', help='Directory containing default configuration files') parser.add_argument('--max_orthogroup_size', dest='max_orthogroup_size', type=int, help='Maximum number of sequences in orthogroup alignments') @@ -27,7 +27,7 @@ # Build the command line. cmd = 'GeneFamilyPhylogenyBuilder' -cmd += ' --alignment_type %s' % args.tree_inference +cmd += ' --alignment_type %s' % args.alignment_type if args.bootstrap_replicates is not None: cmd += ' --bootstrap_replicates %d' % args.bootstrap_replicates cmd += ' --config_dir %s' % args.config_dir