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Modify parsing of pedigree to allow new RNA DE keys #554

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henrikstranneheim opened this issue Aug 24, 2018 · 1 comment
Closed
2 tasks done

Modify parsing of pedigree to allow new RNA DE keys #554

henrikstranneheim opened this issue Aug 24, 2018 · 1 comment
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henrikstranneheim commented Aug 24, 2018 •
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  • sample_origin
  • time_point
@henrikstranneheim henrikstranneheim self-assigned this Aug 24, 2018
henrikstranneheim added a commit that referenced this issue Aug 28, 2018
@henrikstranneheim
Modify parsing of pedigree to allow new RNA DE keys. Fix #554.
f062888 
- Added sample_origin and time_point to pedigree yaml parsing
- Added pedigree test fixture
- Moved some checks from MAIN to pipeline
- Added check for sample_id values in parameter
- Modified pedigree options in CLI
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henrikstranneheim commented Aug 29, 2018 •
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Added to pedigree.yaml:

samples:
  - sample_origin: [SAMPLE_ID]
  - time_point: [TIME_POINT]

Will be parsed and transfered to active_parameters hash:

$active_parameter{sample_origin}{$sample_id} = [SAMPLE_ID]
$active_parameter{time_point}{$sample_id} = [TIME_POINT]

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