Mercurial > repos > mheinzl > variant_analyzer2
diff read2mut.py @ 85:d1cd4cd9f18d draft
planemo upload for repository https://github.com/Single-Molecule-Genetics/VariantAnalyzerGalaxy/tree/master/tools/variant_analyzer commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8-dirty
| author | mheinzl |
|---|---|
| date | Wed, 24 Aug 2022 09:47:08 +0000 |
| parents | e46d5e377760 |
| children | 97bd9c7a1b44 |
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--- a/read2mut.py Fri Aug 19 11:23:37 2022 +0000 +++ b/read2mut.py Wed Aug 24 09:47:08 2022 +0000 @@ -477,9 +477,9 @@ continue if (((key2[:-5] in tag_dict.keys()) and (key2[:-5] in pure_tags_dict_short[key1].keys()) and (key1 in tag_dict[key2[:-5]].keys()) and (key2[:-5] not in used_keys)) or ((key2[:-5] in tag_dict_ref.keys()) and (key2[:-5] in pure_tags_dict_ref[key1].keys()) and (key1 in tag_dict_ref[key2[:-5]].keys()) and (key2[:-5] not in used_keys))): - if key2[:-5] in tag_dict.keys(): + if key2[:-5] in tag_dict.keys() and key1 in tag_dict[key2[:-5]].keys(): variant_type = "alt" - elif key2[:-5] in tag_dict_ref.keys(): + elif key2[:-5] in tag_dict_ref.keys() and key1 in tag_dict_ref[key2[:-5]].keys(): variant_type = "ref" if refalttiers is False and variant_type == "ref": # if we only want information about alt tiers, skip all refs