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Implement file identifier mappings #364

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holtgrewe opened this issue Jun 6, 2024 · 0 comments · Fixed by #365
Closed

Implement file identifier mappings #364

holtgrewe opened this issue Jun 6, 2024 · 0 comments · Fixed by #365
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@holtgrewe
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enhancement New feature or request

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@holtgrewe
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Is your feature request related to a problem? Please describe.
In our phenopacket case manifest file, we allow users to provide sample identifier mappings. This is required so users can harmonize identifiers from "technical ones" in VCF/BAM files towards the ones used in the case.

Describe the solution you'd like
Allow reading per-input file identifier mappings in the {seqvars,strucvars} ingest commands.

Describe alternatives you've considered
N/A

Additional context
N/A
@holtgrewe holtgrewe added the enhancement New feature or request label Jun 6, 2024
@holtgrewe holtgrewe mentioned this issue Jun 6, 2024
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@holtgrewe holtgrewe moved this to In progress in Release Planning Jun 6, 2024
@holtgrewe holtgrewe self-assigned this Jun 6, 2024
holtgrewe added a commit that referenced this issue Jun 6, 2024
@holtgrewe
feat: implement file identifier mappings (#364)
7d22cfc
@holtgrewe holtgrewe linked a pull request Jun 6, 2024 that will close this issue
feat: implement file identifier mappings (#364) #365
Merged
holtgrewe added a commit that referenced this issue Jun 6, 2024
@holtgrewe
feat: implement file identifier mappings (#364) (#365)
57db49a
@github-project-automation github-project-automation bot moved this from In progress to Done in Release Planning Jun 6, 2024
@varfish-bot varfish-bot mentioned this issue Jun 6, 2024
Merged
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enhancement New feature or request
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feat: implement file identifier mappings (#364) varfish-org/varfish-server-worker
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