Build branch main with version main (d87d344)

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

target/nextflow/mapping_and_qc/.config.vsh.yaml

@@ -162,7 +162,7 @@ build_info:
   output: "target/nextflow/mapping_and_qc"
   executable: "target/nextflow/mapping_and_qc/main.nf"
   viash_version: "0.9.0-RC6"
-  git_commit: "861319f5ddc22d51899493bcd30e7066c42193cb"
+  git_commit: "d87d344d4e46dc6f938e57a009607946ed31447c"
   git_remote: "https://github.com/viash-hub/playground"
   dependencies:
   - "target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt"

target/nextflow/mapping_and_qc/main.nf

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

test_data.sh

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