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Overzealous html escapes in VCF? #20

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dnil opened this issue Apr 24, 2024 · 1 comment · Fixed by nf-core/raredisease#538
Closed

Overzealous html escapes in VCF? #20

dnil opened this issue Apr 24, 2024 · 1 comment · Fixed by nf-core/raredisease#538

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@dnil
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dnil commented Apr 24, 2024

Description of the bug

See Clinical-Genomics/scout#4397 and Clinical-Genomics/scout#4577. In particular we identify the DOMAINS field of the INFO.CSQ, which should have entries separated by & where each entry is a tuple TYPE:ID separated by :. The : get escaped to %3A though, which make them harder to read and parse.

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@dnil dnil mentioned this issue Apr 24, 2024
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@jemten jemten linked a pull request May 7, 2024 that will close this issue
Refactoring + other issues with cadd and samtools merge nf-core/raredisease#538
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jemten commented May 28, 2024

fixed with nf-core#538

@jemten jemten closed this as completed May 28, 2024
@dnil dnil mentioned this issue Jun 12, 2024
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Refactoring + other issues with cadd and samtools merge nf-core/raredisease
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@dnil @jemten