diff phylogenomics_analysis.py @ 68:5f76ffe55d0f draft

Uploaded

--- a/phylogenomics_analysis.py	Tue Feb 28 11:08:00 2017 -0500
+++ b/phylogenomics_analysis.py	Tue Feb 28 11:10:33 2017 -0500
@@ -21,7 +21,7 @@
 parser.add_argument('--alignments_method', dest='alignments_method', default=None, help='Multiple sequence alignments method')
 parser.add_argument('--pasta_script_path', dest='pasta_script_path', default=None, help='Path to script for executing pasta')
 parser.add_argument('--pasta_iter_limit', dest='pasta_iter_limit', type=int, default=None, help='"Maximum number of iteration that the PASTA algorithm will execute')
-parser.add_argument('--tree_inference', dest='single_copy_custom', default=None, help='Phylogenetic trees inference method')
+parser.add_argument('--tree_inference', dest='tree_inference', default=None, help='Phylogenetic trees inference method')
 parser.add_argument('--rooting_order', dest='rooting_order', default=None, help='Rooting order configuration for rooting trees')
 parser.add_argument('--bootstrap_replicates', dest='bootstrap_replicates', type=int, default=None, help='Number of replicates for rapid bootstrap analysis')
 parser.add_argument('--max_orthogroup_size', dest='max_orthogroup_size', type=int, default=None, help='Maximum number of sequences in orthogroup alignments')