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Build branch main with version main (d87d344)

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Build pipeline: vsh-ci-build-template-d9jmw

Source commit: d87d344d4e

Source message: Merge pull request #5 from viash-hub/update-test-resources

update test data
This commit is contained in:
CI
2025-02-04 19:35:04 +00:00
parent 5b1018434e
commit fbf20cbd8a
3 changed files with 7 additions and 7 deletions
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2
target/nextflow/mapping_and_qc/.config.vsh.yaml
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@@ -162,7 +162,7 @@ build_info:
output: "target/nextflow/mapping_and_qc" output: "target/nextflow/mapping_and_qc"
executable: "target/nextflow/mapping_and_qc/main.nf" executable: "target/nextflow/mapping_and_qc/main.nf"
viash_version: "0.9.0-RC6" viash_version: "0.9.0-RC6"
git_commit: "861319f5ddc22d51899493bcd30e7066c42193cb" git_commit: "d87d344d4e46dc6f938e57a009607946ed31447c"
git_remote: "https://github.com/viash-hub/playground" git_remote: "https://github.com/viash-hub/playground"
dependencies: dependencies:
- "target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt" - "target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt"

2
target/nextflow/mapping_and_qc/main.nf
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@@ -2989,7 +2989,7 @@ meta = [
"engine" : "native|native", "engine" : "native|native",
"output" : "target/nextflow/mapping_and_qc", "output" : "target/nextflow/mapping_and_qc",
"viash_version" : "0.9.0-RC6", "viash_version" : "0.9.0-RC6",
"git_commit" : "861319f5ddc22d51899493bcd30e7066c42193cb", "git_commit" : "d87d344d4e46dc6f938e57a009607946ed31447c",
"git_remote" : "https://github.com/viash-hub/playground" "git_remote" : "https://github.com/viash-hub/playground"
}, },
"package_config" : { "package_config" : {

10
test_data.sh
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@@ -51,12 +51,12 @@ sed -i -e 's/^.*chromosome=\(.*\)\]$/>chr\1/' "$TEST_DATA_DIR/S288C_reference_ge
if [ ! -d "$TEST_DATA_DIR/S288C_reference_genome_Current_Release_STAR" ]; then if [ ! -d "$TEST_DATA_DIR/S288C_reference_genome_Current_Release_STAR" ]; then
nextflow run vsh/biobox -hub vsh -r main -main-script target/nextflow/star/star_genome_generate/main.nf \ nextflow run vsh/biobox -hub vsh -r main -main-script target/nextflow/star/star_genome_generate/main.nf \
-profile docker \ -profile docker \
--genomeFastaFiles "$TEST_DATA_DIR/S288C_reference_genome_Current_Release/S288C_reference_sequence_R64-5-1_20240529.fsa" \ --genome_fasta_files "$TEST_DATA_DIR/S288C_reference_genome_Current_Release/S288C_reference_sequence_R64-5-1_20240529.fsa" \
--sjdbGTFfile "$TEST_DATA_DIR/S288C_reference_genome_Current_Release/saccharomyces_cerevisiae_R64-5-1_20240529.gff" \ --sjdb_gtf_file "$TEST_DATA_DIR/S288C_reference_genome_Current_Release/saccharomyces_cerevisiae_R64-5-1_20240529.gff" \
--sjdbGTFtagExonParentTranscript Parent \ --sjdb_gtf_tag_exon_parent_transcript Parent \
--sjdbOverhang 100 \ --sjdb_overhang 100 \
--publish_dir "$TEST_DATA_DIR" \ --publish_dir "$TEST_DATA_DIR" \
--sjdbGTFfeatureExon noncoding_exon \ --sjdb_gtf_feature_exon noncoding_exon \
--index S288C_reference_genome_Current_Release_STAR --index S288C_reference_genome_Current_Release_STAR
fi fi