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seqtk_trim: _ to / in module name #368

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merged 2 commits into from
Sep 12, 2024

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stephenturner
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The module is named seqtk/trim not seqtk_trim when installing using nf-core modules install, even though the process name is still SEQTK_TRIM.

Using seqtk_trim as instructed in the docs does not work:

$ nf-core modules install

                                          ,--./,-.
          ___     __   __   __   ___     /,-._.--~\
    |\ | |__  __ /  ` /  \ |__) |__         }  {
    | \| |       \__, \__/ |  \ |___     \`-._,-`-,
                                          `._,._,'

    nf-core/tools version 2.14.1 - https://nf-co.re


? Tool name: seqtk_trim
ERROR    Module 'seqtk_trim' not found in list of available modules.                                                                                                                                                                          
INFO     Use the command 'nf-core modules list' to view available software     

It's seqtk/trim:

$ nf-core modules list remote seqtk

                                          ,--./,-.
          ___     __   __   __   ___     /,-._.--~\
    |\ | |__  __ /  ` /  \ |__) |__         }  {
    | \| |       \__, \__/ |  \ |___     \`-._,-`-,
                                          `._,._,'

    nf-core/tools version 2.14.1 - https://nf-co.re


INFO     Modules available from https://github.com/nf-core/modules.git (master) matching pattern 'seqtk':                                                                                                                                     
                                                                                                                                                                                                                                              
┏━━━━━━━━━━━━━━━┓
┃ Module Name   ┃
┡━━━━━━━━━━━━━━━┩
│ seqtk/cutn    │
│ seqtk/mergepe │
│ seqtk/rename  │
│ seqtk/sample  │
│ seqtk/seq     │
│ seqtk/subseq  │
│ seqtk/trim    │
└───────────────┘

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Awesome! Thanks!

@christopher-hakkaart christopher-hakkaart merged commit 7dcbf5b into nextflow-io:master Sep 12, 2024
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