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nf-core_modules/tests/modules/salmon/quant/test.yml
Harshil Patel c5235a983d
nf-core modules bump-versions for all modules (#630) 
* Add blacklist of modules that shouldn't be updated to .nf-core.yml

* nf-core modules bump-versions for all modules

* Remove TODO statements identified by linting

* Fix md5sums for failing tests

* Fix more tests
2021-07-28 09:10:44 +01:00

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- name: salmon quant single-end
command: nextflow run ./tests/modules/salmon/quant -entry test_salmon_quant_single_end -c tests/config/nextflow.config
tags:
- salmon
- salmon/quant
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: af6d88f109e0d0d6a0826bdf2b3b7e97
- 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: 6c764bd219b7bc17168a99d232c0fe09
- 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/modules/salmon/quant -entry test_salmon_quant_paired_end -c tests/config/nextflow.config
tags:
- salmon
- salmon/quant
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: 29c8cd26f609cacd4fb88713df9c71c2
- 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: 6c764bd219b7bc17168a99d232c0fe09
- 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 test_salmon_quant_single_end_lib_type_A
command: nextflow run tests/modules/salmon/quant -entry test_salmon_quant_single_end_lib_type_A -c tests/config/nextflow.config
tags:
- salmon/quant
- salmon
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: af6d88f109e0d0d6a0826bdf2b3b7e97
- 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: 6c764bd219b7bc17168a99d232c0fe09
- path: output/index/salmon/complete_ref_lens.bin
md5sum: f57562f1fca3ae7b133f895ae13c3d08
- path: output/index/salmon/mphf.bin
md5sum: 53669a47610e33e031faafd32703b714
- 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
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