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henrikstranneheim
approved these changes
Dec 22, 2023
| coordinates["end"] = end | ||
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| sv_type = variant.INFO.get("SVTYPE").split(":")[0] | ||
| sv_type = variant.INFO.get("SVTYPE") |
| def test_format_old_tiddit_dup_tandem(duptandem_old_tiddit_variant, case_obj): | ||
| ## GIVEN a dup with older TIDDIT notation (TDUP, IDUP, ...) | ||
| variant = duptandem_variant | ||
| variant = duptandem_old_tiddit_variant |
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Suggested change
| variant = duptandem_old_tiddit_variant | |
| variant: str = duptandem_tiddit_variant_legacy_format |
| def test_format_tiddit_dup_tandem(duptandem_tiddit_variant, case_obj): | ||
| ## GIVEN a TIDDIT style notation, ie both SVTYPE info and alt field tag has subtype, eg DUP:TANDEM | ||
| variant = duptandem_variant | ||
| variant = duptandem_tiddit_variant |
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| variant = duptandem_tiddit_variant | |
| variant: str = duptandem_tiddit_variant |
Collaborator
|
Should we try to merge these changes @dnil? |
Member
Author
You are asking such good questions! I had the same one last week, but didn't spend the time trying to answer it. Probably, if it was an issue 2023. On the other hand we seem to have lived without. Again, whoever has time to figure out the current status (checking files that go for upload for variants like this etc etc). |
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This PR adds | fixes:
How to prepare for test:
sshto ...bash servers/resources/SERVER.scilifelab.se/update-[THIS_TOOL]-stage.sh [THIS-BRANCH-NAME]How to test:
Expected outcome:
Review:
This version is a: