nf-core_modules/tests/software/salmon/quant/test.yml
Edmund Miller a3684d9594
Lint modules ci (#389)
* ci: Add modules lint step

Moved it ahead of the nextflow install so ideally it'll fail before we
bother doing any more setup

* ci: _ => /

* Update tests/config/pytest_software.yml

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-04-08 09:10:52 +01:00

103 lines
4.7 KiB
YAML

- name: salmon quant single-end
command: nextflow run ./tests/software/salmon/quant -entry test_salmon_quant_single_end -c tests/config/nextflow.config
tags:
- salmon
- salmon/quant
- salmon_quant_single_end
files:
- path: ./output/salmon/test/cmd_info.json
- path: ./output/salmon/test/quant.sf
md5sum: 687368b9963874c1797d210310b38516
- path: ./output/salmon/test/lib_format_counts.json
- path: ./output/salmon/test/quant.genes.sf
md5sum: ad4d31437f06db49b2436abeec29c78e
- path: ./output/salmon/test/logs/salmon_quant.log
- path: ./output/salmon/test/aux_info/expected_bias.gz
md5sum: 24ee10af39b41ecf4f4e08faaaf537ee
- path: ./output/salmon/test/aux_info/observed_bias_3p.gz
md5sum: ef13c06a538e9c34ca9f84212c82f44e
- path: ./output/salmon/test/aux_info/meta_info.json
- path: ./output/salmon/test/aux_info/fld.gz
- path: ./output/salmon/test/aux_info/ambig_info.tsv
md5sum: 2ee3dc3080ad7222e0687481e7a1ee03
- path: ./output/salmon/test/aux_info/observed_bias.gz
md5sum: ef13c06a538e9c34ca9f84212c82f44e
- path: ./output/salmon/test/libParams/flenDist.txt
md5sum: 2de170bdc9f6fd237d286429b292bb28
- path: ./output/index/salmon/ref_indexing.log
- path: ./output/index/salmon/refseq.bin
md5sum: 79c4ddf34be3a98d5a7b9d153629a6f7
- path: ./output/index/salmon/versionInfo.json
md5sum: 204865f645102587c4953fccb256797c
- path: ./output/index/salmon/complete_ref_lens.bin
md5sum: f57562f1fca3ae7b133f895ae13c3d08
- path: ./output/index/salmon/mphf.bin
md5sum: 53669a47610e33e031faafd32703b714
- path: ./output/index/salmon/pre_indexing.log
- path: ./output/index/salmon/ctable.bin
- path: ./output/index/salmon/duplicate_clusters.tsv
md5sum: 51b5292e3a874119c0e1aa566e95d70c
- path: ./output/index/salmon/reflengths.bin
md5sum: f57562f1fca3ae7b133f895ae13c3d08
- path: ./output/index/salmon/info.json
md5sum: 61ff4d3471134c280668355ddd39e99f
- path: ./output/index/salmon/refAccumLengths.bin
md5sum: 8d1970505b2b08ca0eb5ff7722b48cde
- path: ./output/index/salmon/ctg_offsets.bin
md5sum: 27a76542337df436436e66017f66dd25
- path: ./output/index/salmon/rank.bin
md5sum: 3f34dca1ec26cdf89a6d19b1d1c07e71
- path: ./output/index/salmon/pos.bin
- path: ./output/index/salmon/seq.bin
- name: salmon quant paired end
command: nextflow run ./tests/software/salmon/quant -entry test_salmon_quant_paired_end -c tests/config/nextflow.config
tags:
- salmon
- salmon/quant
- salmon_quant_paired_end
files:
- path: ./output/salmon/test/cmd_info.json
- path: ./output/salmon/test/quant.sf
md5sum: 4abd35d0a60b5279b394424f0e6ea42d
- path: ./output/salmon/test/lib_format_counts.json
- path: ./output/salmon/test/quant.genes.sf
md5sum: d750f8c9f248e30c3a6d0c2678bf9c6a
- path: ./output/salmon/test/logs/salmon_quant.log
- path: ./output/salmon/test/aux_info/expected_bias.gz
md5sum: 24ee10af39b41ecf4f4e08faaaf537ee
- path: ./output/salmon/test/aux_info/observed_bias_3p.gz
md5sum: ef13c06a538e9c34ca9f84212c82f44e
- path: ./output/salmon/test/aux_info/meta_info.json
- path: ./output/salmon/test/aux_info/fld.gz
- path: ./output/salmon/test/aux_info/ambig_info.tsv
md5sum: 33c0df069da554344869604ea8c18b22
- path: ./output/salmon/test/aux_info/observed_bias.gz
md5sum: ef13c06a538e9c34ca9f84212c82f44e
- path: ./output/salmon/test/libParams/flenDist.txt
md5sum: 221f754ed55dd1e34874f9b7b3f9d240
- path: ./output/index/salmon/ref_indexing.log
- path: ./output/index/salmon/refseq.bin
md5sum: 79c4ddf34be3a98d5a7b9d153629a6f7
- path: ./output/index/salmon/versionInfo.json
md5sum: 204865f645102587c4953fccb256797c
- path: ./output/index/salmon/complete_ref_lens.bin
md5sum: f57562f1fca3ae7b133f895ae13c3d08
- path: ./output/index/salmon/mphf.bin
md5sum: 53669a47610e33e031faafd32703b714
- path: ./output/index/salmon/pre_indexing.log
- path: ./output/index/salmon/ctable.bin
- path: ./output/index/salmon/duplicate_clusters.tsv
md5sum: 51b5292e3a874119c0e1aa566e95d70c
- path: ./output/index/salmon/reflengths.bin
md5sum: f57562f1fca3ae7b133f895ae13c3d08
- path: ./output/index/salmon/info.json
md5sum: 61ff4d3471134c280668355ddd39e99f
- path: ./output/index/salmon/refAccumLengths.bin
md5sum: 8d1970505b2b08ca0eb5ff7722b48cde
- path: ./output/index/salmon/ctg_offsets.bin
md5sum: 27a76542337df436436e66017f66dd25
- path: ./output/index/salmon/rank.bin
md5sum: 3f34dca1ec26cdf89a6d19b1d1c07e71
- path: ./output/index/salmon/pos.bin
- path: ./output/index/salmon/seq.bin