multiqc: add v1.7

src/docker_modules/multiqc/1.7/Dockerfile

+FROM debian:stretch
+MAINTAINER Laurent Modolo
+
+ENV MULTIQC_VERSION=1.7
+ENV PACKAGES build-essential \
+             python3-pip \
+             python3-setuptools \
+             python3-dev \
+             python3-wheel \
+             procps \
+             locales
+
+RUN apt-get update && \
+    apt-get install -y --no-install-recommends ${PACKAGES} && \
+    apt-get clean
+
+RUN locale-gen en_US.UTF-8
+ENV LC_ALL=en_US.utf-8
+ENV LANG=en_US.utf-8
+ENV LC_ALL=C.UTF-8
+ENV LANG=C.UTF-8
+
+
+RUN pip3 install multiqc==${MULTIQC_VERSION}
+

src/docker_modules/multiqc/1.7/docker_init.sh

+#!/bin/sh
+docker build src/docker_modules/multiqc/1.7 -t 'multiqc:1.7'

src/nf_modules/multiqc/multiqc_paired.config

@@ -9,7 +9,7 @@ profiles {
         cpus = 1
       }
       withName: multiqc {
-        container = "multiqc:1.0"
+        container = "multiqc:1.7"
         cpus = 1
       }
     }
@@ -22,7 +22,7 @@ profiles {
         cpus = 1
       }
       withName: multiqc {
-        container = "file://bin/multiqc:1.0.sif"
+        container = "file://bin/multiqc:1.7.sif"
         cpus = 1
       }
     }
@@ -37,19 +37,19 @@ profiles {
         cpus = 1
         memory = "5GB"
         time = "6h"
-        queueSize = 1000
+        queueSize = 1.70
         pollInterval = '60sec'
         queue = 'monointeldeb128'
       }
       withName: multiqc {
         beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
-        module = "multiqc/1.0"
+        module = "multiqc/1.7"
         executor = "sge"
         clusterOptions = "-cwd -V"
         cpus = 1
         memory = "5GB"
         time = "6h"
-        queueSize = 1000
+        queueSize = 1.70
         pollInterval = '60sec'
         queue = 'monointeldeb128'
       }

src/nf_modules/multiqc/multiqc_single.config

@@ -8,7 +8,7 @@ profiles {
         cpus = 1
       }
       withName: multiqc {
-        container = "multiqc:1.0"
+        container = "multiqc:1.7"
         cpus = 1
       }
     }
@@ -21,7 +21,7 @@ profiles {
         cpus = 1
       }
       withName: multiqc {
-        container = "file://bin/multiqc:1.0.sif"
+        container = "file://bin/multiqc:1.7.sif"
         cpus = 1
       }
     }
@@ -36,19 +36,19 @@ profiles {
         cpus = 1
         memory = "5GB"
         time = "6h"
-        queueSize = 1000
+        queueSize = 1.70
         pollInterval = '60sec'
         queue = 'monointeldeb128'
       }
       withName: multiqc {
         beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
-        module = "multiqc/1.0"
+        module = "multiqc/1.7"
         executor = "sge"
         clusterOptions = "-cwd -V"
         cpus = 1
         memory = "5GB"
         time = "6h"
-        queueSize = 1000
+        queueSize = 1.70
         pollInterval = '60sec'
         queue = 'monointeldeb128'
       }

src/singularity_modules/multiqc/1.7/build.sh

+#/bin/sh
+sudo singularity build --force bin/multiqc:1.7.sif src/singularity_modules/multiqc/1.7/multiqc.def && \
+singularity sign bin/multiqc:1.7.sif

src/singularity_modules/multiqc/1.7/multiqc.def

+Bootstrap: docker
+From: debian:stretch
+
+%labels
+MAINTAINER Laurent Modolo
+
+%post
+MULTIQC_VERSION=1.7
+PACKAGES="build-essential \
+             python3-pip \
+             python3-setuptools \
+             python3-dev \
+             python3-wheel \
+             procps \
+             locales"
+
+apt-get update && \
+apt-get install -y --no-install-recommends ${PACKAGES} && \
+apt-get clean
+
+locale-gen en_US.UTF-8
+LC_ALL=en_US.utf-8
+LANG=en_US.utf-8
+LC_ALL=C.UTF-8
+LANG=C.UTF-8
+
+pip3 install multiqc==${MULTIQC_VERSION}
+
+%environment
+export KALLISTO_VERSION=0.44.0
+export locale-gen en_US.UTF-8
+export LC_ALL=en_US.utf-8
+export LANG=en_US.utf-8
+export LC_ALL=C.UTF-8
+export LANG=C.UTF-8
+
+%runscript
+exec /bin/bash "$@"
+