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e2ba70ed9a
* feat(cellranger): Add initial count module Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com> * feat(cellranger): Add mkgtf module * test(cellranger): Fix count test with mkgtf * fix(cellranger): Generalize gtf attribute filters * chore: Add .gitignore for cellranger tar * build(cellranger): Update dockerfile https://joshtronic.com/2021/09/12/fixed-repository-debian-security-buster-updates-changed-suite-from-stable-to-oldstable/ * Apply suggestions from code review Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com> * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update modules/cellranger/mkgtf/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * style: Capitalize README * test(cellranger): Update pytest_modules * feat(cellranger): Add initial mkfastq module * ci: Update pytest modules * refactor(cellranger): Update modules to new syntax * docs(cellranger): Update meta files There is some terrible copy-pasting going on. * fix(cellranger): Add args Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
19 lines
1 KiB
YAML
19 lines
1 KiB
YAML
- name: cellranger count test_cellranger_count
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command: nextflow run tests/modules/cellranger/count -entry test_cellranger_count -c tests/config/nextflow.config -c tests/modules/cellranger/count/nextflow.config
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tags:
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- cellranger
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- cellranger/count
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files:
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- path: output/cellranger/sample-123/outs/filtered_feature_bc_matrix.h5
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- path: output/cellranger/sample-123/outs/metrics_summary.csv
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md5sum: 707df0f101d479d93f412ca74f9c4131
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- path: output/cellranger/sample-123/outs/molecule_info.h5
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md5sum: cf03b2b3ca776a1c37aa3518e91268ba
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- path: output/cellranger/sample-123/outs/possorted_genome_bam.bam
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md5sum: 15441da9cfceea0bb48c8b66b1b860df
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- path: output/cellranger/sample-123/outs/possorted_genome_bam.bam.bai
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md5sum: 7c3d49c77016a09535aff61a027f750c
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- path: output/cellranger/sample-123/outs/raw_feature_bc_matrix
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- path: output/cellranger/sample-123/outs/raw_feature_bc_matrix.h5
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md5sum: 40c8df814eb8723b7317b234dc8222e9
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- path: output/cellranger/sample-123/outs/web_summary.html
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