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https://github.com/MillironX/nf-core_modules.git
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16d20a7cc4
* New last/lastdb module to index sequences before alignment. The `lastdb` command creates a sequence index for the LAST aligner (https://gitlab.com/mcfrith/last). Input can be in FASTA or FASTQ format, and compression is handled automagically. DNA or protein sequences can be indexed. The sequence index is a collection of files sharing the same basename. This module sets the basename to the sample identifier (`$meta.id`) and creates the index in a directory always called `lastdb`. The module's output channel then conveys a copy of the metadata and the path to the `lastdb` directory. Other modules will follow (see Issue #464). The LAST aligner can align proteins to proteins, DNA to DNA and can translate DNA align to proteins. * Remove trailing whitespace. * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update as suggested in PR. * Attempt to pass linting. Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
41 lines
1.6 KiB
YAML
41 lines
1.6 KiB
YAML
- name: last lastdb test_last_lastdb
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command: nextflow run tests/software/last/lastdb -entry test_last_lastdb -c tests/config/nextflow.config
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tags:
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- last
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- last/lastdb
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files:
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- path: output/last/lastdb/test.bck
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md5sum: 5519879b9b6c4d1fc508da7f17f88f2e
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- path: output/last/lastdb/test.des
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md5sum: 3a9ea6d336e113a74d7fdca5e7b623fc
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- path: output/last/lastdb/test.prj
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md5sum: 489715f14b0fea6273822696e72357f9
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- path: output/last/lastdb/test.sds
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md5sum: 2cd381f4f8a9c52cfcd323a2863eccb2
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- path: output/last/lastdb/test.ssp
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md5sum: 4137fb6fe9df2b3d78d5b960390aac7b
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- path: output/last/lastdb/test.suf
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md5sum: 1895efa8653e8e9bd3605cff0408ed33
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- path: output/last/lastdb/test.tis
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md5sum: b7c40f06b1309dc6f37849eeb86dfd22
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- name: last lastdb test_last_lastdb_gzipped_input
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command: nextflow run tests/software/last/lastdb -entry test_last_lastdb_gzipped_input -c tests/config/nextflow.config
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tags:
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- last
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- last/lastdb
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files:
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- path: output/last/lastdb/test.bck
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md5sum: 8692b1229b1fff1c2d39c4c610ff842b
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- path: output/last/lastdb/test.des
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md5sum: 26ab49015cc572172b9efa50fc5190bc
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- path: output/last/lastdb/test.prj
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md5sum: a302beb8b8b884d8450055ede61e973b
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- path: output/last/lastdb/test.sds
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md5sum: cad9927d4bd161257e98165ad755d8e4
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- path: output/last/lastdb/test.ssp
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md5sum: 574c8a080247c2af9b5c46ff70936186
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- path: output/last/lastdb/test.suf
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md5sum: 8c406111b398631e51ca79d99b0ee897
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- path: output/last/lastdb/test.tis
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md5sum: d57a3a5f7e3e036807356c15bd3aad97
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