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Merge branch 'dev' of github.com:nf-core/taxprofiler into allow-targz-motus
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commit
4df3409f4a
2 changed files with 1 additions and 2 deletions
2
.github/workflows/ci.yml
vendored
2
.github/workflows/ci.yml
vendored
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@ -169,5 +169,5 @@ jobs:
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- name: Run pipeline with test data
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- name: Run pipeline with test data
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uses: Wandalen/wretry.action@v1.0.11
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uses: Wandalen/wretry.action@v1.0.11
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with:
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with:
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command: nextflow run ${GITHUB_WORKSPACE} -profile test_nothing,docker --run_malt --outdir ./results
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command: nextflow run ${GITHUB_WORKSPACE} -profile test_nothing,docker --run_malt --input 'https://github.com/nf-core/test-datasets/raw/taxprofiler/samplesheet_shortreadsonly.csv' --outdir ./results
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attempt_limit: 3
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attempt_limit: 3
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@ -67,7 +67,6 @@ workflow PROFILING {
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// MALT: We groupTuple to have all samples in one channel for MALT as database
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// MALT: We groupTuple to have all samples in one channel for MALT as database
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// loading takes a long time, so we only want to run it once per database
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// loading takes a long time, so we only want to run it once per database
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ch_input_for_malt = ch_input_for_profiling.malt
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ch_input_for_malt = ch_input_for_profiling.malt
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.filter { it[0]['instrument_platform'] == 'ILLUMINA' }
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.map {
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.map {
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meta, reads, db_meta, db ->
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meta, reads, db_meta, db ->
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