Mercurial > repos > sanbi-uwc > assess_poliovirus_alignment
changeset 8:852e76e7d22a draft
planemo upload for repository https://github.com/pvanheus/polio_report commit a99e10fec2fac5aae70974c977eb3b362a1a8429-dirty
| author | sanbi-uwc |
|---|---|
| date | Wed, 14 Sep 2022 11:25:43 +0000 |
| parents | 9fd6dde72d2e |
| children | acaaf49e2747 |
| files | assess_alignment.py assess_poliovirus_alignment.xml |
| diffstat | 2 files changed, 2 insertions(+), 2 deletions(-) [+] |
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--- a/assess_alignment.py Wed Sep 14 11:11:02 2022 +0000 +++ b/assess_alignment.py Wed Sep 14 11:25:43 2022 +0000 @@ -184,7 +184,7 @@ best_match_mismatch_list = mismatch_list best_match_quality = quality best_match_reference = dataset_name - best_consensus = open(args.consensi[file_index]).read() + best_consensus = open(args.consensi[file_index]).read().replace('>Consensus', f'>{args.sample_name}') percent_mismatches = round(min_mismatches / lengths[best_match_reference] * 100, 2) info = {
--- a/assess_poliovirus_alignment.xml Wed Sep 14 11:11:02 2022 +0000 +++ b/assess_poliovirus_alignment.xml Wed Sep 14 11:25:43 2022 +0000 @@ -1,4 +1,4 @@ -<tool id="assess_poliovirus_alignment" name="Assess poliovirus alignment" version="0.6.0+galaxy0" profile="21.05"> +<tool id="assess_poliovirus_alignment" name="Assess poliovirus alignment" version="0.7.0+galaxy0" profile="21.05"> <requirements> <requirement type="package" version="3.9">python</requirement> </requirements>