Mercurial > repos > greg > draw_amr_matrix
changeset 16:7bd48449ee79 draft
Uploaded
| author | greg |
|---|---|
| date | Mon, 01 May 2023 18:52:58 +0000 |
| parents | 487a3c008812 |
| children | eb86b4bf140e |
| files | draw_amr_matrix.py |
| diffstat | 1 files changed, 1 insertions(+), 2 deletions(-) [+] |
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--- a/draw_amr_matrix.py Mon May 01 17:52:05 2023 +0000 +++ b/draw_amr_matrix.py Mon May 01 18:52:58 2023 +0000 @@ -235,7 +235,6 @@ parser.add_argument('--mutation_regions_dir', action='store', dest='mutation_regions_dir', help='Directory for mutation regions TSV files produced by this tool') parser.add_argument('--amr_matrix_png_dir', action='store', dest='amr_matrix_png_dir', help='Directory for PNG files produced by this tool') parser.add_argument('--errors', action='store', dest='errors', help='Output file containing errors') - parser.add_argument('--in_test_mode', action='store', dest='in_test_mode', help='Flag for running functional tests') args = parser.parse_args() @@ -254,4 +253,4 @@ for i in reference: reference_size += len(i.seq) - draw_amr_matrix(amr_feature_hits_files, args.amr_deletions_file, args.varscan_vcf_file, args.amr_mutation_regions_bed_file, args.amr_gene_drug_file, reference, reference_size, args.mutation_regions_dir, args.amr_matrix_png_dir, args.errors, args.in_test_mode) + draw_amr_matrix(amr_feature_hits_files, args.amr_deletions_file, args.varscan_vcf_file, args.amr_mutation_regions_bed_file, args.amr_gene_drug_file, reference, reference_size, args.mutation_regions_dir, args.amr_matrix_png_dir, args.errors)