Latest versions

UCL-BLIC · Aug 1, 2018 · 7d62b73 · 7d62b73
1 parent b348a13
commit 7d62b73
Show file tree

Hide file tree

Showing 2 changed files with 6 additions and 5 deletions.
diff --git a/containers/sarek/Dockerfile b/containers/sarek/Dockerfile
@@ -1,9 +1,10 @@
 FROM nfcore/base:latest
 
 LABEL \
-  authors="Maxime.Gracia@scilifelab.se, Szilveszter.Juhos@scilifelab.se" \
+  authors="Maxime.Garcia@scilifelab.se, Szilveszter.Juhos@scilifelab.se" \
   description="Image with tools used in Sarek" \
-  maintainers="Maxime.Gracia@scilifelab.se, Szilveszter.Juhos@scilifelab.se"
+	maintainer="Maxime Garcia <maxime.garcia@scilifelab.se>, Szilveszter Juhos <Szilveszter.Juhos@scilifelab.se>"
 
 COPY environment.yml /
 RUN conda env update -n root -f /environment.yml && conda clean -a
+ENV PATH /opt/conda/bin:$PATH
diff --git a/containers/sarek/environment.yml b/containers/sarek/environment.yml
@@ -12,10 +12,10 @@ dependencies:
   - conda-forge::openjdk=8.0.144 # Needed for FastQC docker - see bioconda/bioconda-recipes#5026
   - fastqc=0.11.7
   - freebayes=1.2.0
-  - gatk4=4.0.3.0
-  - htslib=1.7
+  - gatk4=4.0.6.0
+  - htslib=1.9
   - igvtools=2.3.93
-  - manta=1.3.0
+  - manta=1.4.0
   - multiqc=1.5
   - qualimap=2.2.2a
   - samtools=1.8