Harshil Patel
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5e18e36895
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Update and check tests are running for all modules (#420)
* Fixes for PR 371
* Fix tags
* Add md5sum
* Add md5sums for stringtie
* Fix tests for modules where subtool = build
* Fix pytest_software name conflicts
* Change _ to / in test.yml tags
* Nope...that didnt work
* Fix sequenzautils/bam2seqz tests
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2021-04-09 13:47:05 +01:00 |
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suzannejin
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989fb7d5b7
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modify test path - module gatk4 + added new module gatk4/haplotypecaller (#382)
* new module: samtools/fastq
* solve conflict: pytest_software.yml
* solve linting conflicts
* solved EditorConfig linting problem
* Module samtools/fastq:
* output compressed fastq.gz file(s)
* add if conditionals for single/paired reads
* samtools/fastq: modified test.yml
* samtools/fastq: modified main.nf to avoid duplicated part of the script section
* fix README.md
* modify test path gatk4
* fix config
* Add new module gatk4/haplotypecaller
* solve check issues
* fix test.yml file
* fix test.yml gz.tbi
* Update software/gatk4/haplotypecaller/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update software/gatk4/haplotypecaller/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update software/gatk4/haplotypecaller/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update software/gatk4/haplotypecaller/meta.yml
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update software/gatk4/haplotypecaller/meta.yml
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Update tests/software/gatk4/haplotypecaller/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
* Apply suggestions from code review
Co-authored-by: suzannejin <suzanne.jin@crg.eu>
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-03-26 12:46:46 +01:00 |
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Harshil Patel
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acb1a12a56
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Re-organise all test data (#354)
* Re-organise all test data
* Fix ECLint
* Fix ECLint agaaainn
* Now is not the time EClint
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2021-03-24 09:53:41 +00:00 |
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Maxime Garcia
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05cbbbaded
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Rename gatk/createsequencedictionary -> gatk4/createsequencedictionary (#260)
* fix: update and sort filters
* fix: rename gatk/createsequencedictionary -> gatk4/createsequencedictionary
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2021-03-08 14:45:46 +01:00 |
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