diff --git a/containers/sarek/Dockerfile b/containers/sarek/Dockerfile index 28db2cb0e..340e699e7 100644 --- 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 , Szilveszter Juhos " 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 index 7187785ab..25f08613f 100644 --- 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