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Build branch main with version main (7f8bcc2)

Browse Source 
Build pipeline: viash-hub.biobox.main-zp6tq

Source commit: 7f8bcc2b3e

Source message: BD rhapsody sequence analysis (#96)

* wip

* fix test

* add help

* update 2.2 args

* fix bug

* extend test data

* output separate files

* analyse missing args

* tweaks to test

* fix script

* fix test

* fix test

* move small reference

* wip generate wta test data

* don't forget about umi in r1

* remove unneeded pkg

* load reference in memory just once

* fix random choices

* extend test

* add abc immunediscoverypanel

* wip abc testing code

* fix abc test; need unique instrument, run and flowcell ids for each sample

* add smk data

* add entry to changelog

* remove old test file

* adapt test for missing read

* update description

* add comment

* ensure cwl files are absolute

* Apply suggestions from code review

Co-authored-by: Dries Schaumont <5946712+DriesSchaumont@users.noreply.github.com>

* fix suggestion

* newer pipelines have docker requirements as a hint instead of a strict requirement

* rename str to content

* remove deleted resources

* fix containers

* fix script

* fix suggestion

* fix suggestion...

* fix test

* fix component name

* fix test

* apply suggestions

* fix test

* added note

* fix changelog

* fix changelog again

* splitting hairs here

---------

Co-authored-by: Dries Schaumont <5946712+DriesSchaumont@users.noreply.github.com>
This commit is contained in:
CI
2024-09-17 10:13:18 +00:00
parent f47054953e
commit 6f2f840fd9
269 changed files with 15113 additions and 1100 deletions
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6
target/executable/seqtk/seqtk_sample/.config.vsh.yaml
View File

@@ -173,9 +173,9 @@ build_info:
output: "target/executable/seqtk/seqtk_sample"
executable: "target/executable/seqtk/seqtk_sample/seqtk_sample"
viash_version: "0.9.0"
git_commit: "38f635ad57ef05550bba3a0864c81627f84f5ad2"
git_remote: "https://x-access-token:ghs_wFnCgH6LWyegjU3sAMvKhUKRQxXHxx2DXwds@github.com/viash-hub/biobox"
git_tag: "v0.2.0-2-g38f635a"
git_commit: "7f8bcc2b3e1ffaac9778b6acb42420b19660d1a1"
git_remote: "https://x-access-token:ghs_aSDBedV4vU66pddFDN6d8UEy0ZQApn08RAsh@github.com/viash-hub/biobox"
git_tag: "v0.2.0-3-g7f8bcc2"
package_config:
name: "biobox"
version: "main"

4
target/executable/seqtk/seqtk_sample/seqtk_sample
View File

@@ -481,9 +481,9 @@ FROM quay.io/biocontainers/seqtk:1.4--he4a0461_2
ENTRYPOINT []
LABEL org.opencontainers.image.authors="Jakub Majercik"
LABEL org.opencontainers.image.description="Companion container for running component seqtk seqtk_sample"
LABEL org.opencontainers.image.created="2024-09-17T06:47:39Z"
LABEL org.opencontainers.image.created="2024-09-17T09:53:02Z"
LABEL org.opencontainers.image.source="https://github.com/lh3/seqtk/tree/v1.4"
LABEL org.opencontainers.image.revision="38f635ad57ef05550bba3a0864c81627f84f5ad2"
LABEL org.opencontainers.image.revision="7f8bcc2b3e1ffaac9778b6acb42420b19660d1a1"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER