Merge branch 'dev' into add_date_dev

genomic-medicine-sweden · Nov 6, 2023 · 431f907 · 431f907
2 parents afeac2a + cd90ccd
commit 431f907
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Showing 3 changed files with 4 additions and 4 deletions.
diff --git a/assets/multiqc_config.yml b/assets/multiqc_config.yml
@@ -1,5 +1,5 @@
 report_comment: >
-  This report has been generated by the <a href="https://github.com/genomic-medicine-sweden/tomte/releases/tag/0.1.0" target="_blank">genomic-medicine-sweden/tomte</a>
+  This report has been generated by the <a href="https://github.com/genomic-medicine-sweden/tomte/releases/tag/1.0.0" target="_blank">genomic-medicine-sweden/tomte</a>
   analysis pipeline. For information about how to interpret these results, please see the
   <a href="https://github.com/genomic-medicine-sweden/tomte/blob/master/docs/output.md" target="_blank">documentation</a>.
 report_section_order:

diff --git a/nextflow.config b/nextflow.config
@@ -252,7 +252,7 @@ manifest {
     description     = """Pipeline to analyse RNAseq from raredisease patients"""
     mainScript      = 'main.nf'
     nextflowVersion = '!>=23.04.0'
-    version = '0.1.0'
+    version = '1.0.0'
     doi             = ''
 }
 

diff --git a/subworkflows/local/alignment.nf b/subworkflows/local/alignment.nf
@@ -36,8 +36,8 @@ workflow ALIGNMENT {
 
         FASTP(ch_cat_fastq, [], false, false)
 
-        ch_gtf=gtf.map { it -> [[:], it] }
-        STAR_ALIGN(FASTP.out.reads, star_index, ch_gtf, false, 'illumina', false)
+        ch_gtf = gtf.map { it -> [[:], it] }
+        STAR_ALIGN(FASTP.out.reads, star_index, ch_gtf, false, platform, false)
 
         SAMTOOLS_INDEX( STAR_ALIGN.out.bam )