nf-core_modules/tests/software/last/mafconvert/test.yml at 95dfa7bc8d6ebef115ce6f4c1e9babc3635db623 - millironx/nf-core_modules - Milliron X Code: Code hosting for cattle or technology, but especially anything to do with both of them

millironx/nf-core_modules

mirror of https://github.com/MillironX/nf-core_modules.git synced 2024-09-21 15:52:05 +00:00

aleksandrabliznina 0745213729

New last/mafconvert module to convert MAF alignments. (#527 )

* New last/mafconvert module to convert MAF alignments.

The `maf-convert` tool distributed with [LAST](https://gitlab.com/mcfrith/last)
reads alignmnts in [MAF](https://genome-asia.ucsc.edu/FAQ/FAQformat.html#format5)
format and converts them in another format (axt, blast, blasttab, chain,
gff, html, psl, sam, tab).

This new module is part of the work described in Issue #464. During this
development, we fix the versiob of LAST to 1219 to ensure consistency.
We will upgrade it later.

* Delete white space.

* Update the function.nf file to the dev version.

2021-06-09 08:38:57 +02:00

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 - name: last mafconvert test_last_mafconvert
   command: nextflow run tests/software/last/mafconvert -entry test_last_mafconvert -c tests/config/nextflow.config
   tags:
     - last/mafconvert
     - last
   files:
     - path: output/last/contigs.genome.psl.gz
       md5sum: 807889fbc4129884ae74c4ecf8804dde