Merge pull request #28 from ewels/master

UPPMAX fixes for sw version refactoring
nf-core · Aug 7, 2017 · 29621e1 · 29621e1
2 parents fd5559d + cb2d932
commit 29621e1
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Showing 3 changed files with 3 additions and 1 deletion.
diff --git a/bismark.nf b/bismark.nf
@@ -486,7 +486,7 @@ process get_software_versions {
     script:
     """
     echo $version > v_ngi_methylseq.txt
-    echo $nextflow.version > v_nextflow.txt
+    echo $workflow.nextflow.version > v_nextflow.txt
     bismark_genome_preparation --version > v_bismark_genome_preparation.txt
     fastqc --version > v_fastqc.txt
     cutadapt --version > v_cutadapt.txt

diff --git a/conf/uppmax-devel.config b/conf/uppmax-devel.config
@@ -73,6 +73,7 @@ process {
   }
   $get_software_versions {
     errorStrategy = 'ignore'
+    module = ['bioinfo-tools', 'FastQC', 'TrimGalore', 'samtools/1.3', 'bismark', 'QualiMap', 'MultiQC']
   }
   // NB: Overwrite this in a config file in the working directory (nextflow.config) or with -c
   // if you have your own installation of MultiQC outside of the environment module system.

diff --git a/conf/uppmax.config b/conf/uppmax.config
@@ -73,6 +73,7 @@ process {
   }
   $get_software_versions {
     errorStrategy = 'ignore'
+    module = ['bioinfo-tools', 'FastQC', 'TrimGalore', 'samtools/1.3', 'bismark', 'QualiMap', 'MultiQC']
   }
   // NB: Overwrite this in a config file in the working directory (nextflow.config) or with -c
   // if you have your own installation of MultiQC outside of the environment module system.