From 7064340c406b0c6263b8f2c7644c7e9aa6ed3d70 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Wed, 20 Nov 2019 15:38:35 +0100
Subject: [PATCH] update docker script for v0.4.0 to automatise push
---
src/.docker_modules/bcftools/1.7/docker_init.sh | 1 +
src/.docker_modules/bedtools/2.25.0/docker_init.sh | 1 +
src/.docker_modules/bioawk/1.0/docker_init.sh | 1 +
src/.docker_modules/bowtie/1.2.2/docker_init.sh | 1 +
src/.docker_modules/bowtie2/2.3.4.1/docker_init.sh | 1 +
src/.docker_modules/bwa/0.7.17/Dockerfile | 4 ++--
src/.docker_modules/bwa/0.7.17/docker_init.sh | 1 +
src/.docker_modules/canu/1.6/docker_init.sh | 1 +
src/.docker_modules/cutadapt/1.14/docker_init.sh | 1 +
src/.docker_modules/cutadapt/1.15/docker_init.sh | 1 +
src/.docker_modules/cutadapt/2.1/docker_init.sh | 1 +
src/.docker_modules/deeptools/3.0.2/docker_init.sh | 1 +
src/.docker_modules/deeptools/3.1.1/docker_init.sh | 1 +
src/.docker_modules/fastp/0.19.7/docker_init.sh | 1 +
src/.docker_modules/fastqc/0.11.5/docker_init.sh | 1 +
src/.docker_modules/file_handle/0.1.1/docker_init.sh | 1 +
src/.docker_modules/gatk/4.0.8.1/docker_init.sh | 1 +
src/.docker_modules/hisat2/2.0.0/docker_init.sh | 1 +
src/.docker_modules/hisat2/2.1.0/docker_init.sh | 1 +
src/.docker_modules/htseq/0.11.2/docker_init.sh | 1 +
src/.docker_modules/htseq/0.8.0/docker_init.sh | 1 +
src/.docker_modules/kallisto/0.43.1/docker_init.sh | 1 +
src/.docker_modules/kallisto/0.44.0/docker_init.sh | 1 +
src/.docker_modules/macs2/2.1.2/docker_init.sh | 1 +
src/.docker_modules/multiqc/1.0/docker_init.sh | 1 +
src/.docker_modules/multiqc/1.7/docker_init.sh | 1 +
src/.docker_modules/music/6613c53/docker_init.sh | 1 +
src/.docker_modules/picard/2.18.11/docker_init.sh | 1 +
src/.docker_modules/pigz/2.4/docker_init.sh | 1 +
src/.docker_modules/python/3.8/docker_init.sh | 1 +
src/.docker_modules/r/3.5.3/docker_init.sh | 1 +
src/.docker_modules/rsem/1.3.0/docker_init.sh | 1 +
src/.docker_modules/salmon/0.8.2/docker_init.sh | 1 +
src/.docker_modules/sambamba/0.6.7/docker_init.sh | 1 +
src/.docker_modules/sambamba/0.6.9/docker_init.sh | 2 +-
src/.docker_modules/samblaster/0.1.24/docker_init.sh | 1 +
src/.docker_modules/samtools/1.7/docker_init.sh | 1 +
src/.docker_modules/sratoolkit/2.8.2/docker_init.sh | 1 +
src/.docker_modules/star/2.7.3a/docker_init.sh | 1 +
src/.docker_modules/subread/1.6.4/docker_init.sh | 1 +
src/.docker_modules/tophat/2.1.1/docker_init.sh | 1 +
src/.docker_modules/trimmomatic/0.36/docker_init.sh | 1 +
src/.docker_modules/ucsc/375/docker_init.sh | 1 +
src/.docker_modules/umi_tools/0.5.4/docker_init.sh | 1 +
src/.docker_modules/umi_tools/1.0.0/docker_init.sh | 1 +
src/.docker_modules/urqt/d62c1f8/docker_init.sh | 1 +
46 files changed, 47 insertions(+), 3 deletions(-)
diff --git a/src/.docker_modules/bcftools/1.7/docker_init.sh b/src/.docker_modules/bcftools/1.7/docker_init.sh
index 9fea98d1..c2bf9251 100755
--- a/src/.docker_modules/bcftools/1.7/docker_init.sh
+++ b/src/.docker_modules/bcftools/1.7/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/bcftools:1.7
docker build src/.docker_modules/bcftools/1.7 -t 'lbmc/bcftools:1.7'
docker push lbmc/bcftools:1.7
diff --git a/src/.docker_modules/bedtools/2.25.0/docker_init.sh b/src/.docker_modules/bedtools/2.25.0/docker_init.sh
index e95165ab..e35c4d6a 100755
--- a/src/.docker_modules/bedtools/2.25.0/docker_init.sh
+++ b/src/.docker_modules/bedtools/2.25.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/bedtools:2.25.0
docker build src/.docker_modules/bedtools/2.25.0 -t 'lbmc/bedtools:2.25.0'
docker push lbmc/bedtools:2.25.0
diff --git a/src/.docker_modules/bioawk/1.0/docker_init.sh b/src/.docker_modules/bioawk/1.0/docker_init.sh
index 50704774..8e6d7444 100755
--- a/src/.docker_modules/bioawk/1.0/docker_init.sh
+++ b/src/.docker_modules/bioawk/1.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/bioawk:1.0
docker build src/.docker_modules/bioawk/1.0 -t 'lbmc/bioawk:1.0'
docker push lbmc/bioawk:1.0
diff --git a/src/.docker_modules/bowtie/1.2.2/docker_init.sh b/src/.docker_modules/bowtie/1.2.2/docker_init.sh
index 0328b036..814a311d 100755
--- a/src/.docker_modules/bowtie/1.2.2/docker_init.sh
+++ b/src/.docker_modules/bowtie/1.2.2/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/bowtie:1.2.2
docker build src/.docker_modules/bowtie/1.2.2 -t 'lbmc/bowtie:1.2.2'
docker push lbmc/bowtie:1.2.2
diff --git a/src/.docker_modules/bowtie2/2.3.4.1/docker_init.sh b/src/.docker_modules/bowtie2/2.3.4.1/docker_init.sh
index b3ff515e..bdb93e16 100755
--- a/src/.docker_modules/bowtie2/2.3.4.1/docker_init.sh
+++ b/src/.docker_modules/bowtie2/2.3.4.1/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/bowtie2:2.3.4.1
docker build src/.docker_modules/bowtie2/2.3.4.1 -t 'lbmc/bowtie2:2.3.4.1'
docker push lbmc/bowtie2:2.3.4.1
diff --git a/src/.docker_modules/bwa/0.7.17/Dockerfile b/src/.docker_modules/bwa/0.7.17/Dockerfile
index 7a538498..aaf33daf 100644
--- a/src/.docker_modules/bwa/0.7.17/Dockerfile
+++ b/src/.docker_modules/bwa/0.7.17/Dockerfile
@@ -1,10 +1,10 @@
-FROM sambamba:0.6.7
+FROM lbmc/sambamba:0.6.7
MAINTAINER Laurent Modolo
ENV BWA_VERSION=0.7.17
ENV SAMBLASTER_VERSION=0.1.24
-ENV PACKAGES curl=7.58.0* \
+ENV PACKAGES curl=7.58* \
ca-certificates=20180409 \
build-essential=12.4* \
zlib1g-dev=1:1.2.11*
diff --git a/src/.docker_modules/bwa/0.7.17/docker_init.sh b/src/.docker_modules/bwa/0.7.17/docker_init.sh
index 559e37b9..3cabcbd9 100755
--- a/src/.docker_modules/bwa/0.7.17/docker_init.sh
+++ b/src/.docker_modules/bwa/0.7.17/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/bwa:0.7.17
docker build src/.docker_modules/bwa/0.7.17 -t 'lbmc/bwa:0.7.17'
docker push lbmc/bwa:0.7.17
diff --git a/src/.docker_modules/canu/1.6/docker_init.sh b/src/.docker_modules/canu/1.6/docker_init.sh
index ed22a433..b1afabb6 100755
--- a/src/.docker_modules/canu/1.6/docker_init.sh
+++ b/src/.docker_modules/canu/1.6/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/canu:1.6
docker build src/.docker_modules/canu/1.6 -t 'lbmc/canu:1.6'
docker push lbmc/canu:1.6
diff --git a/src/.docker_modules/cutadapt/1.14/docker_init.sh b/src/.docker_modules/cutadapt/1.14/docker_init.sh
index e0821b65..1ba18cb4 100755
--- a/src/.docker_modules/cutadapt/1.14/docker_init.sh
+++ b/src/.docker_modules/cutadapt/1.14/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/cutadapt:1.14
docker build src/.docker_modules/cutadapt/1.14 -t 'lbmc/cutadapt:1.14'
docker push lbmc/cutadapt:1.14
diff --git a/src/.docker_modules/cutadapt/1.15/docker_init.sh b/src/.docker_modules/cutadapt/1.15/docker_init.sh
index ed6c9837..49303006 100755
--- a/src/.docker_modules/cutadapt/1.15/docker_init.sh
+++ b/src/.docker_modules/cutadapt/1.15/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/cutadapt:1.15
docker build src/.docker_modules/cutadapt/1.15 -t 'lbmc/cutadapt:1.15'
docker push lbmc/cutadapt:1.15
diff --git a/src/.docker_modules/cutadapt/2.1/docker_init.sh b/src/.docker_modules/cutadapt/2.1/docker_init.sh
index 92b62694..cda255f0 100755
--- a/src/.docker_modules/cutadapt/2.1/docker_init.sh
+++ b/src/.docker_modules/cutadapt/2.1/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/cutadapt:2.1
docker build src/.docker_modules/cutadapt/2.1 -t 'lbmc/cutadapt:2.1'
docker push lbmc/cutadapt:2.1
diff --git a/src/.docker_modules/deeptools/3.0.2/docker_init.sh b/src/.docker_modules/deeptools/3.0.2/docker_init.sh
index 4ec75a19..33959edc 100755
--- a/src/.docker_modules/deeptools/3.0.2/docker_init.sh
+++ b/src/.docker_modules/deeptools/3.0.2/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/deeptools:3.0.2
docker build src/.docker_modules/deeptools/3.0.2 -t 'lbmc/deeptools:3.0.2'
docker push lbmc/deeptools:3.0.2
diff --git a/src/.docker_modules/deeptools/3.1.1/docker_init.sh b/src/.docker_modules/deeptools/3.1.1/docker_init.sh
index ef698402..06e63a90 100755
--- a/src/.docker_modules/deeptools/3.1.1/docker_init.sh
+++ b/src/.docker_modules/deeptools/3.1.1/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/deeptools:3.1.1
docker build src/.docker_modules/deeptools/3.1.1 -t 'lbmc/deeptools:3.1.1'
docker push lbmc/deeptools:3.1.1
diff --git a/src/.docker_modules/fastp/0.19.7/docker_init.sh b/src/.docker_modules/fastp/0.19.7/docker_init.sh
index 48c21ffa..1085915c 100755
--- a/src/.docker_modules/fastp/0.19.7/docker_init.sh
+++ b/src/.docker_modules/fastp/0.19.7/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/fastp:0.19.7
docker build src/.docker_modules/fastp/0.19.7 -t 'lbmc/fastp:0.19.7'
docker push lbmc/fastp:0.19.7
diff --git a/src/.docker_modules/fastqc/0.11.5/docker_init.sh b/src/.docker_modules/fastqc/0.11.5/docker_init.sh
index fd62c47b..6b82ff40 100755
--- a/src/.docker_modules/fastqc/0.11.5/docker_init.sh
+++ b/src/.docker_modules/fastqc/0.11.5/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/fastqc:0.11.5
docker build src/.docker_modules/fastqc/0.11.5 -t 'lbmc/fastqc:0.11.5'
docker push lbmc/fastqc:0.11.5
diff --git a/src/.docker_modules/file_handle/0.1.1/docker_init.sh b/src/.docker_modules/file_handle/0.1.1/docker_init.sh
index 1dded20b..0f1cf512 100755
--- a/src/.docker_modules/file_handle/0.1.1/docker_init.sh
+++ b/src/.docker_modules/file_handle/0.1.1/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/file_handle:0.1.1
docker build src/.docker_modules/file_handle/0.1.1 -t 'lbmc/file_handle:0.1.1'
docker push lbmc/file_handle:0.1.1
diff --git a/src/.docker_modules/gatk/4.0.8.1/docker_init.sh b/src/.docker_modules/gatk/4.0.8.1/docker_init.sh
index 8df1ea88..ddfd8ee0 100755
--- a/src/.docker_modules/gatk/4.0.8.1/docker_init.sh
+++ b/src/.docker_modules/gatk/4.0.8.1/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/gatk:4.0.8.1
docker build src/.docker_modules/gatk/4.0.8.1 -t 'lbmc/gatk:4.0.8.1'
docker push lbmc/gatk:4.0.8.1
diff --git a/src/.docker_modules/hisat2/2.0.0/docker_init.sh b/src/.docker_modules/hisat2/2.0.0/docker_init.sh
index eae7c398..8bfb1636 100755
--- a/src/.docker_modules/hisat2/2.0.0/docker_init.sh
+++ b/src/.docker_modules/hisat2/2.0.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/hisat2:2.0.0
docker build src/.docker_modules/hisat2/2.0.0 -t 'lbmc/hisat2:2.0.0'
docker push lbmc/hisat2:2.0.0
diff --git a/src/.docker_modules/hisat2/2.1.0/docker_init.sh b/src/.docker_modules/hisat2/2.1.0/docker_init.sh
index b25f8ac2..55fb191a 100755
--- a/src/.docker_modules/hisat2/2.1.0/docker_init.sh
+++ b/src/.docker_modules/hisat2/2.1.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/hisat2:2.1.0
docker build src/.docker_modules/hisat2/2.1.0 -t 'lbmc/hisat2:2.1.0'
docker push lbmc/hisat2:2.1.0
diff --git a/src/.docker_modules/htseq/0.11.2/docker_init.sh b/src/.docker_modules/htseq/0.11.2/docker_init.sh
index d697a624..9bd50893 100755
--- a/src/.docker_modules/htseq/0.11.2/docker_init.sh
+++ b/src/.docker_modules/htseq/0.11.2/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/htseq:0.11.2
docker build src/.docker_modules/htseq/0.11.2 -t 'lbmc/htseq:0.11.2'
docker push lbmc/htseq:0.11.2
diff --git a/src/.docker_modules/htseq/0.8.0/docker_init.sh b/src/.docker_modules/htseq/0.8.0/docker_init.sh
index d41dc8c7..e322517c 100755
--- a/src/.docker_modules/htseq/0.8.0/docker_init.sh
+++ b/src/.docker_modules/htseq/0.8.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/htseq:0.8.0
docker build src/.docker_modules/htseq/0.8.0 -t 'lbmc/htseq:0.8.0'
docker push lbmc/htseq:0.8.0
diff --git a/src/.docker_modules/kallisto/0.43.1/docker_init.sh b/src/.docker_modules/kallisto/0.43.1/docker_init.sh
index 384eb6a0..b93c004d 100755
--- a/src/.docker_modules/kallisto/0.43.1/docker_init.sh
+++ b/src/.docker_modules/kallisto/0.43.1/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/kallisto:0.43.1
docker build src/.docker_modules/kallisto/0.43.1 -t 'lbmc/kallisto:0.43.1'
docker push lbmc/kallisto:0.43.1
diff --git a/src/.docker_modules/kallisto/0.44.0/docker_init.sh b/src/.docker_modules/kallisto/0.44.0/docker_init.sh
index e74899cb..4fa79008 100755
--- a/src/.docker_modules/kallisto/0.44.0/docker_init.sh
+++ b/src/.docker_modules/kallisto/0.44.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/kallisto:0.44.0
docker build src/.docker_modules/kallisto/0.44.0 -t 'lbmc/kallisto:0.44.0'
docker push lbmc/kallisto:0.44.0
diff --git a/src/.docker_modules/macs2/2.1.2/docker_init.sh b/src/.docker_modules/macs2/2.1.2/docker_init.sh
index 2676105e..8dc7b248 100755
--- a/src/.docker_modules/macs2/2.1.2/docker_init.sh
+++ b/src/.docker_modules/macs2/2.1.2/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/macs2:2.1.2
docker build src/.docker_modules/macs2/2.1.2 -t 'lbmc/macs2:2.1.2'
docker push lbmc/macs2:2.1.2
diff --git a/src/.docker_modules/multiqc/1.0/docker_init.sh b/src/.docker_modules/multiqc/1.0/docker_init.sh
index f71a9164..1b45ce3e 100755
--- a/src/.docker_modules/multiqc/1.0/docker_init.sh
+++ b/src/.docker_modules/multiqc/1.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/multiqc:1.0
docker build src/.docker_modules/multiqc/1.0 -t 'lbmc/multiqc:1.0'
docker push lbmc/multiqc:1.0
diff --git a/src/.docker_modules/multiqc/1.7/docker_init.sh b/src/.docker_modules/multiqc/1.7/docker_init.sh
index 926ffe1b..e091f04a 100755
--- a/src/.docker_modules/multiqc/1.7/docker_init.sh
+++ b/src/.docker_modules/multiqc/1.7/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/multiqc:1.7
docker build src/.docker_modules/multiqc/1.7 -t 'lbmc/multiqc:1.7'
docker push lbmc/multiqc:1.7
diff --git a/src/.docker_modules/music/6613c53/docker_init.sh b/src/.docker_modules/music/6613c53/docker_init.sh
index 9bcf3037..20e327a9 100755
--- a/src/.docker_modules/music/6613c53/docker_init.sh
+++ b/src/.docker_modules/music/6613c53/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/music:6613c53
docker build src/.docker_modules/music/6613c53 -t 'lbmc/music:6613c53'
docker push lbmc/music:6613c53
diff --git a/src/.docker_modules/picard/2.18.11/docker_init.sh b/src/.docker_modules/picard/2.18.11/docker_init.sh
index 2bd4802e..82c4cf7d 100755
--- a/src/.docker_modules/picard/2.18.11/docker_init.sh
+++ b/src/.docker_modules/picard/2.18.11/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/picard:2.18.11
docker build src/.docker_modules/picard/2.18.11 -t 'lbmc/picard:2.18.11'
docker push lbmc/picard:2.18.11
diff --git a/src/.docker_modules/pigz/2.4/docker_init.sh b/src/.docker_modules/pigz/2.4/docker_init.sh
index 2c473f11..38d7347d 100755
--- a/src/.docker_modules/pigz/2.4/docker_init.sh
+++ b/src/.docker_modules/pigz/2.4/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/pigz:2.4
docker build src/.docker_modules/pigz/2.4 -t 'lbmc/pigz:2.4'
docker push lbmc/pigz:2.4
diff --git a/src/.docker_modules/python/3.8/docker_init.sh b/src/.docker_modules/python/3.8/docker_init.sh
index a0357e76..9a1c9b8b 100755
--- a/src/.docker_modules/python/3.8/docker_init.sh
+++ b/src/.docker_modules/python/3.8/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/python:3.8
docker build src/.docker_modules/python/3.8 -t 'lbmc/python:3.8'
docker push lbmc/python:3.8
diff --git a/src/.docker_modules/r/3.5.3/docker_init.sh b/src/.docker_modules/r/3.5.3/docker_init.sh
index 8e587ecb..ce785597 100755
--- a/src/.docker_modules/r/3.5.3/docker_init.sh
+++ b/src/.docker_modules/r/3.5.3/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/r:3.5.3
docker build src/.docker_modules/r/3.5.3 -t 'lbmc/r:3.5.3'
docker push lbmc/r:3.5.3
diff --git a/src/.docker_modules/rsem/1.3.0/docker_init.sh b/src/.docker_modules/rsem/1.3.0/docker_init.sh
index 14a4a6e4..aadcb4d8 100755
--- a/src/.docker_modules/rsem/1.3.0/docker_init.sh
+++ b/src/.docker_modules/rsem/1.3.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/rsem:1.3.0
docker build src/.docker_modules/rsem/1.3.0 -t 'lbmc/rsem:1.3.0'
docker push lbmc/rsem:1.3.0
diff --git a/src/.docker_modules/salmon/0.8.2/docker_init.sh b/src/.docker_modules/salmon/0.8.2/docker_init.sh
index 59477e7d..f44850b4 100755
--- a/src/.docker_modules/salmon/0.8.2/docker_init.sh
+++ b/src/.docker_modules/salmon/0.8.2/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/salmon:0.8.2
docker build src/.docker_modules/salmon/0.8.2 -t 'lbmc/salmon:0.8.2'
docker push lbmc/salmon:0.8.2
diff --git a/src/.docker_modules/sambamba/0.6.7/docker_init.sh b/src/.docker_modules/sambamba/0.6.7/docker_init.sh
index bf65bcbe..ccedf316 100755
--- a/src/.docker_modules/sambamba/0.6.7/docker_init.sh
+++ b/src/.docker_modules/sambamba/0.6.7/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/sambamba:0.6.7
docker build src/.docker_modules/sambamba/0.6.7 -t 'lbmc/sambamba:0.6.7'
docker push lbmc/sambamba:0.6.7
diff --git a/src/.docker_modules/sambamba/0.6.9/docker_init.sh b/src/.docker_modules/sambamba/0.6.9/docker_init.sh
index d740a4f2..9525b17e 100755
--- a/src/.docker_modules/sambamba/0.6.9/docker_init.sh
+++ b/src/.docker_modules/sambamba/0.6.9/docker_init.sh
@@ -1,4 +1,4 @@
#!/bin/sh
+docker pull lbmc/sambamba:0.6.9
docker build src/.docker_modules/sambamba/0.6.9 -t 'lbmc/sambamba:0.6.9'
docker push lbmc/sambamba:0.6.9
-docker push lbmc/sambamba:0.6.9
diff --git a/src/.docker_modules/samblaster/0.1.24/docker_init.sh b/src/.docker_modules/samblaster/0.1.24/docker_init.sh
index 4fb8a737..0fec5a07 100755
--- a/src/.docker_modules/samblaster/0.1.24/docker_init.sh
+++ b/src/.docker_modules/samblaster/0.1.24/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/samblaster:0.1.24
docker build src/.docker_modules/samblaster/0.1.24 -t 'lbmc/samblaster:0.1.24'
docker push lbmc/samblaster:0.1.24
diff --git a/src/.docker_modules/samtools/1.7/docker_init.sh b/src/.docker_modules/samtools/1.7/docker_init.sh
index a5819309..83c510a9 100755
--- a/src/.docker_modules/samtools/1.7/docker_init.sh
+++ b/src/.docker_modules/samtools/1.7/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/samtools:1.7
docker build src/.docker_modules/samtools/1.7 -t 'lbmc/samtools:1.7'
docker push lbmc/samtools:1.7
diff --git a/src/.docker_modules/sratoolkit/2.8.2/docker_init.sh b/src/.docker_modules/sratoolkit/2.8.2/docker_init.sh
index 759c2835..ce040fcc 100755
--- a/src/.docker_modules/sratoolkit/2.8.2/docker_init.sh
+++ b/src/.docker_modules/sratoolkit/2.8.2/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/sratoolkit:2.8.2
docker build src/.docker_modules/sratoolkit/2.8.2 -t 'lbmc/sratoolkit:2.8.2'
docker push lbmc/sratoolkit:2.8.2
diff --git a/src/.docker_modules/star/2.7.3a/docker_init.sh b/src/.docker_modules/star/2.7.3a/docker_init.sh
index c3e325fb..50beecfc 100755
--- a/src/.docker_modules/star/2.7.3a/docker_init.sh
+++ b/src/.docker_modules/star/2.7.3a/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/star:2.7.3a
docker build src/.docker_modules/star/2.7.3a/ -t 'lbmc/star:2.7.3a'
docker push lbmc/star:2.7.3a
diff --git a/src/.docker_modules/subread/1.6.4/docker_init.sh b/src/.docker_modules/subread/1.6.4/docker_init.sh
index 9e8dc157..0dd51ca0 100755
--- a/src/.docker_modules/subread/1.6.4/docker_init.sh
+++ b/src/.docker_modules/subread/1.6.4/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/subread:1.6.4
docker build src/.docker_modules/subread/1.6.4 -t 'lbmc/subread:1.6.4'
docker push lbmc/subread:1.6.4
diff --git a/src/.docker_modules/tophat/2.1.1/docker_init.sh b/src/.docker_modules/tophat/2.1.1/docker_init.sh
index 212fb6af..67151131 100755
--- a/src/.docker_modules/tophat/2.1.1/docker_init.sh
+++ b/src/.docker_modules/tophat/2.1.1/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/tophat:2.1.1
docker build src/.docker_modules/tophat/2.1.1 -t 'lbmc/tophat:2.1.1'
docker push lbmc/tophat:2.1.1
diff --git a/src/.docker_modules/trimmomatic/0.36/docker_init.sh b/src/.docker_modules/trimmomatic/0.36/docker_init.sh
index 9bcd98b0..f054581b 100755
--- a/src/.docker_modules/trimmomatic/0.36/docker_init.sh
+++ b/src/.docker_modules/trimmomatic/0.36/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/trimmomatic:0.36
docker build src/.docker_modules/trimmomatic/0.36 -t 'lbmc/trimmomatic:0.36'
docker push lbmc/trimmomatic:0.36
diff --git a/src/.docker_modules/ucsc/375/docker_init.sh b/src/.docker_modules/ucsc/375/docker_init.sh
index e54fadd3..f0cc9056 100755
--- a/src/.docker_modules/ucsc/375/docker_init.sh
+++ b/src/.docker_modules/ucsc/375/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/ucsc:375
docker build src/.docker_modules/ucsc/375/ -t 'lbmc/ucsc:375'
docker push lbmc/ucsc:375
diff --git a/src/.docker_modules/umi_tools/0.5.4/docker_init.sh b/src/.docker_modules/umi_tools/0.5.4/docker_init.sh
index 6314e3f2..200e9c06 100755
--- a/src/.docker_modules/umi_tools/0.5.4/docker_init.sh
+++ b/src/.docker_modules/umi_tools/0.5.4/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/umi_tools:1.0.0
docker build src/.docker_modules/umi_tools/1.0.0/ -t 'lbmc/umi_tools:1.0.0'
docker push lbmc/umi_tools:1.0.0
diff --git a/src/.docker_modules/umi_tools/1.0.0/docker_init.sh b/src/.docker_modules/umi_tools/1.0.0/docker_init.sh
index 6314e3f2..200e9c06 100755
--- a/src/.docker_modules/umi_tools/1.0.0/docker_init.sh
+++ b/src/.docker_modules/umi_tools/1.0.0/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/umi_tools:1.0.0
docker build src/.docker_modules/umi_tools/1.0.0/ -t 'lbmc/umi_tools:1.0.0'
docker push lbmc/umi_tools:1.0.0
diff --git a/src/.docker_modules/urqt/d62c1f8/docker_init.sh b/src/.docker_modules/urqt/d62c1f8/docker_init.sh
index 5e09a84f..bb3fb4f8 100755
--- a/src/.docker_modules/urqt/d62c1f8/docker_init.sh
+++ b/src/.docker_modules/urqt/d62c1f8/docker_init.sh
@@ -1,3 +1,4 @@
#!/bin/sh
+docker pull lbmc/urqt:d62c1f8
docker build src/.docker_modules/urqt/d62c1f8 -t 'lbmc/urqt:d62c1f8'
docker push lbmc/urqt:d62c1f8
--
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