From f6a640ba6c60703013b5896c38bdccd9cfd8393e Mon Sep 17 00:00:00 2001 From: MiguelJulia Date: Tue, 29 Oct 2019 10:48:09 +0100 Subject: [PATCH] updated container recipes to install Prokka 1.14.0 --- Dockerfile | 4 ++-- Singularity | 2 +- 2 files changed, 3 insertions(+), 3 deletions(-) diff --git a/Dockerfile b/Dockerfile index bec4c77..7d857d9 100644 --- a/Dockerfile +++ b/Dockerfile @@ -24,7 +24,7 @@ RUN echo "Installing FastQC app" && \ echo "Installing spades app" && \ scif install /opt/spades_v3.8.0_centos7.scif && \ echo "Installing prokka app" && \ - scif install /opt/prokka_v1.13_centos7.scif && \ + scif install /opt/prokka_v1.14.0_centos7.scif && \ echo "Installing quast app" && \ scif install /opt/quast_v5.0.0_centos7.scif && \ echo "Installing multiqc app" && \ @@ -147,6 +147,6 @@ ENV LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/scif/apps/wgsoutbreaker/lib/lib #ENTRYPOINT ["/opt/docker-entrypoint.sh"] #CMD ["scif"] RUN echo "export LC_ALL=en_US.UTF-8" >> /etc/bashrc -RUN find /scif/apps -maxdepth 2 -name "bin" | while read in; do echo "export PATH=\$PATH:$in" >> /etc/bashrc;done +RUN find /scif/apps -maxdepth 2 -name "bin" | while read in; do echo "export PATH=\$PATH:$in" >> /etc/bashrc;done RUN if [ -z "${LD_LIBRARY_PATH-}" ]; then echo "export LD_LIBRARY_PATH=/usr/local/lib" >> /etc/bashrc;fi RUN find /scif/apps -maxdepth 2 -name "lib" | while read in; do echo "export LD_LIBRARY_PATH=\$LD_LIBRARY_PATH:$in" >> /etc/bashrc;done diff --git a/Singularity b/Singularity index 9becc6f..9df1637 100644 --- a/Singularity +++ b/Singularity @@ -29,7 +29,7 @@ From: buisciii/centos7_base_image:latest echo "Installing spades app" && \ scif install /opt/scif_app_recipes/spades_v3.8.0_centos7.scif && \ echo "Installing prokka app" && \ - scif install /opt/scif_app_recipes/prokka_v1.13_centos7.scif && \ + scif install /opt/scif_app_recipes/prokka_v1.14.0_centos7.scif && \ echo "Installing quast app" && \ scif install /opt/scif_app_recipes/quast_v5.0.0_centos7.scif && \ echo "Installing multiqc app" && \