Skip to content

Commit

Permalink
doc(tree.py): make explicit in help string that exclude sites are sec…
Browse files Browse the repository at this point in the history
…ond column in tsv
  • Loading branch information
corneliusroemer committed Nov 18, 2021
1 parent 5ad1574 commit ce0834c
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion augur/tree.py
Expand Up @@ -345,7 +345,7 @@ def register_arguments(parser):
parser.add_argument('--nthreads', type=nthreads_value, default=1,
help="number of threads to use; specifying the value 'auto' will cause the number of available CPU cores on your system, if determinable, to be used")
parser.add_argument('--vcf-reference', type=str, help='fasta file of the sequence the VCF was mapped to')
parser.add_argument('--exclude-sites', type=str, help='file name of one-based sites to exclude for raw tree building (BED format in .bed files, DRM format in tab-delimited files, or one position per line)')
parser.add_argument('--exclude-sites', type=str, help='file name of one-based sites to exclude for raw tree building (BED format in .bed files, second column in tab-delimited files, or one position per line)')
parser.add_argument('--tree-builder-args', type=str, default='', help='extra arguments to be passed directly to the executable of the requested tree method (e.g., --tree-builder-args="-czb")')


Expand Down

0 comments on commit ce0834c

Please sign in to comment.