mirror of
https://github.com/MillironX/nf-core_modules.git
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63b3975292
* new gubbins module * new gubbins module * new gubbins module * Update software/gubbins/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/gubbins/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/gubbins/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/gubbins/meta.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * new gubbins module * new gubbins module * new gubbins module * new gubbins module * new gubbins module * new gubbins module * new gubbins module * Update tests/config/test_data.config Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/software/gubbins/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * new gubbins module * new gubbins module * new snpsites module * new snpsites module * new snpsites module * new snpsites module * adding fasttree module * correct trailing whitespace * using sarscov2 as a test dir * use sars-cov-2 alignment * remove old test alignment * new snpsites module * new snpsites module * new snpsites module * updated test file names * new snpsites module * remove snpsites from gubbins branch * remove redundant test_fas alignment * update md5 sums Co-authored-by: avantonder <avt@sanger.ac.uk> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: avantonder <ajv37@cam.ac.uk>
23 lines
1.1 KiB
YAML
23 lines
1.1 KiB
YAML
- name: gubbins
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command: nextflow run ./tests/software/gubbins -entry test_gubbins -c tests/config/nextflow.config
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tags:
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- gubbins
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files:
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- path: output/gubbins/all_sites.filtered_polymorphic_sites.fasta
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md5sum: 4cbfd93868d8ed7d4d8b099eba137134
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- path: output/gubbins/all_sites.recombination_predictions.embl
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md5sum: d41d8cd98f00b204e9800998ecf8427e
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- path: output/gubbins/all_sites.recombination_predictions.gff
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md5sum: f95871e79968340cb82532e2c9b0c92b
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- path: output/gubbins/all_sites.branch_base_reconstruction.embl
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md5sum: 02e6fb268f7422bfe34b27ecd3b2c245
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- path: output/gubbins/all_sites.summary_of_snp_distribution.vcf
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md5sum: 276e62e888ea811577c8ffb2da0b3aff
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- path: output/gubbins/all_sites.per_branch_statistics.csv
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md5sum: 94b09b25d10504b56aa0307beae98a98
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- path: output/gubbins/all_sites.filtered_polymorphic_sites.phylip
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md5sum: 0a77f397a7797c5c3386832745b0c97a
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- path: output/gubbins/all_sites.final_tree.tre
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md5sum: e3c7ea18e2c5c49774c0e2ff78bd1818
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- path: output/gubbins/all_sites.node_labelled.final_tree.tre
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md5sum: 7727b4c4111ebf49cc8a4f1fdd25092c
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