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Verified Commit 789625d7 authored by Laurent Modolo's avatar Laurent Modolo
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singularity build.sh: add error catch on build

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with 22 additions and 19 deletions
#/bin/sh
sudo singularity build --force bin/bcftools:1.7.sif src/singularity_modules/bcftools/1.7/bcftools.def
sudo singularity build --force bin/bcftools:1.7.sif src/singularity_modules/bcftools/1.7/bcftools.def && \
singularity sign bin/bcftools:1.7.sif
#/bin/sh
sudo singularity build --force bin/bedtools:2.25.0.sif src/singularity_modules/bedtools/2.25.0/bedtools.def
sudo singularity build --force bin/bedtools:2.25.0.sif src/singularity_modules/bedtools/2.25.0/bedtools.def && \
singularity sign bin/bedtools:2.25.0.sif
#/bin/sh
sudo singularity build --force bin/bioawk:1.0.sif src/singularity_modules/bioawk/1.0/bioawk.def
sudo singularity build --force bin/bioawk:1.0.sif src/singularity_modules/bioawk/1.0/bioawk.def && \
singularity sign bin/bioawk:1.0.sif
#/bin/sh
sudo singularity build --force bin/bowtie:1.2.2.sif src/singularity_modules/bowtie/1.2.2/bowtie.def
sudo singularity build --force bin/bowtie:1.2.2.sif src/singularity_modules/bowtie/1.2.2/bowtie.def && \
singularity sign bin/bowtie:1.2.2.sif
#/bin/sh
sudo singularity build --force bin/bowtie2:2.3.4.1.sif src/singularity_modules/bowtie2/2.3.4.1/bowtie2.def
sudo singularity build --force bin/bowtie2:2.3.4.1.sif src/singularity_modules/bowtie2/2.3.4.1/bowtie2.def && \
singularity sign bin/bowtie2:2.3.4.1.sif
#/bin/sh
sudo singularity build --force bin/bwa:0.7.17.sif src/singularity_modules/bwa/0.7.17/bwa.def
sudo singularity build --force bin/bwa:0.7.17.sif src/singularity_modules/bwa/0.7.17/bwa.def && \
singularity sign bin/bwa:0.7.17.sif
#/bin/sh
sudo singularity build --force bin/canu:1.6.sif src/singularity_modules/canu/1.6/canu.def
sudo singularity build --force bin/canu:1.6.sif src/singularity_modules/canu/1.6/canu.def && \
singularity sign bin/canu:1.6.sif
#/bin/sh
sudo singularity build --force bin/cutadapt:1.14.sif src/singularity_modules/cutadapt/1.14/cutadapt.def
sudo singularity build --force bin/cutadapt:1.14.sif src/singularity_modules/cutadapt/1.14/cutadapt.def && \
singularity sign bin/cutadapt:1.14.sif
#/bin/sh
sudo singularity build --force bin/cutadapt:1.15.sif src/singularity_modules/cutadapt/1.15/cutadapt.def
sudo singularity build --force bin/cutadapt:1.15.sif src/singularity_modules/cutadapt/1.15/cutadapt.def && \
singularity sign bin/cutadapt:1.15.sif
#/bin/sh
sudo singularity build --force bin/deeptools:3.0.2.sif src/singularity_modules/deeptools/3.0.2/deeptools.def
sudo singularity build --force bin/deeptools:3.0.2.sif src/singularity_modules/deeptools/3.0.2/deeptools.def && \
singularity sign bin/deeptools:3.0.2.sif
#/bin/sh
sudo singularity build --force bin/deeptools:3.1.1.sif src/singularity_modules/deeptools/3.1.1/deeptools.def
sudo singularity build --force bin/deeptools:3.1.1.sif src/singularity_modules/deeptools/3.1.1/deeptools.def && \
singularity sign bin/deeptools:3.1.1.sif
#/bin/sh
sudo singularity build --force bin/fastqc:0.11.5.sif src/singularity_modules/fastqc/0.11.5/fastqc.def
sudo singularity build --force bin/fastqc:0.11.5.sif src/singularity_modules/fastqc/0.11.5/fastqc.def && \
singularity sign bin/fastqc:0.11.5.sif
#/bin/sh
sudo singularity build --force bin/file_handle:0.1.1.sif src/singularity_modules/file_handle/0.1.1/file_handle.def
sudo singularity build --force bin/file_handle:0.1.1.sif src/singularity_modules/file_handle/0.1.1/file_handle.def && \
singularity sign bin/file_handle:0.1.1.sif
#/bin/sh
sudo singularity build --force bin/gatk:4.0.8.1.sif src/singularity_modules/gatk/4.0.8.1/gatk.def
sudo singularity build --force bin/gatk:4.0.8.1.sif src/singularity_modules/gatk/4.0.8.1/gatk.def && \
singularity sign bin/gatk:4.0.8.1.sif
#/bin/sh
sudo singularity build --force bin/hisat2:2.0.0.sif src/singularity_modules/hisat2/2.0.0/hisat2.def
sudo singularity build --force bin/hisat2:2.0.0.sif src/singularity_modules/hisat2/2.0.0/hisat2.def && \
singularity sign bin/hisat2:2.0.0.sif
#/bin/sh
sudo singularity build --force bin/htseq:0.8.0.sif src/singularity_modules/htseq/0.8.0/htseq.def
sudo singularity build --force bin/htseq:0.8.0.sif src/singularity_modules/htseq/0.8.0/htseq.def && \
singularity sign bin/htseq:0.8.0.sif
#/bin/sh
sudo singularity build --force bin/kallisto:0.43.1.sif src/singularity_modules/kallisto/0.43.1/kallisto.def
sudo singularity build --force bin/kallisto:0.43.1.sif src/singularity_modules/kallisto/0.43.1/kallisto.def && \
singularity sign bin/kallisto:0.43.1.sif
#/bin/sh
sudo singularity build --force bin/kallisto:0.44.0.sif src/singularity_modules/kallisto/0.44.0/kallisto.def
sudo singularity build --force bin/kallisto:0.44.0.sif src/singularity_modules/kallisto/0.44.0/kallisto.def && \
singularity sign bin/kallisto:0.44.0.sif
#/bin/sh
sudo singularity build --force bin/bowtie:1.2.2.sif src/singularity_modules/bowtie/1.2.2/bowtie.def && \
singularity sign bin/bowtie:1.2.2.sif
#/bin/sh
sudo singularity build --force bin/multiqc:1.0.sif src/singularity_modules/multiqc/1.0/multiqc.def
sudo singularity build --force bin/multiqc:1.0.sif src/singularity_modules/multiqc/1.0/multiqc.def && \
singularity sign bin/multiqc:1.0.sif
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