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mgibio/vep_helper-cwl:1.1.0

Machine learning & AI
Data science
Manifest digest

sha256:1959b2a1f546c02e6f3e1357612746771a3fe0633c221ef78bed174763c2e240

OS/ARCH

linux/amd64

Compressed size

314.82 MB

Last pushed

over 7 years by mgibio

Type

Image

Manifest digest

sha256:1959b2a1f546c02e6f3e1357612746771a3fe0633c221ef78bed174763c2e240

Image Layers

Image Layers

1ADD file ... in / 41.51 MB
2/bin/sh -c set -xe &&847 B
3/bin/sh -c rm -rf /var/lib/apt/lists/*526 B
4/bin/sh -c mkdir -p /run/systemd168 B
5CMD ["/bin/bash"]0 B
6/bin/sh -c apt-get update &&141.18 MB
7ENV OPT=/opt/vep0 B
8ENV OPT_SRC=/opt/vep/src0 B
9ENV PERL5LIB=:/opt/vep/src/bioperl-live0 B
10ENV KENT_SRC=/opt/vep/src/kent-335_base/src0 B
11ENV HTSLIB_DIR=/opt/vep/src/htslib0 B
12ENV MACHTYPE=x86_640 B
13ENV DEPS=/opt/vep/src0 B
14ENV PATH=/opt/vep/src/ensembl-vep:/opt/vep/src/var_c_code:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
15ENV LANG_VAR=en_US.UTF-80 B
16/bin/sh -c useradd -r -m4.4 KB
17USER vep0 B
18COPY --chown=vep:vepdir:007e96a7ab18ebc81a580a9cdec413e0d9115497c8adc9e3221eb5dc3e9b0943 in /opt/vep/src 58.15 MB
19USER root0 B
20WORKDIR /opt/vep/src/bioperl-ext/Bio/Ext/Align/0 B
21/bin/sh -c perl Makefile.PL &&1.11 MB
22WORKDIR /opt/vep/src/ensembl-xs0 B
23/bin/sh -c perl Makefile.PL &&418.23 KB
24WORKDIR /opt/vep/src0 B
25/bin/sh -c ensembl-vep/travisci/build_c.sh && 49.68 MB
26ENV LC_ALL=en_US.UTF-80 B
27ENV LANG=en_US.UTF-80 B
28USER vep0 B
29WORKDIR /opt/vep/src/ensembl-vep0 B
30/bin/sh -c echo >> $OPT/.profile4.05 MB
31MAINTAINER John Garza <[email protected]>0 B
32LABEL description=Vep helper image0 B
33USER root0 B
34/bin/sh -c apt-get update -y18.41 MB
35WORKDIR /0 B
36/bin/sh -c ln -s /opt/vep/src/ensembl-vep/vep185 B
37WORKDIR /opt/vep/src/ensembl-vep0 B
38/bin/sh -c perl INSTALL.pl --NO_UPDATE167 B
39/bin/sh -c mkdir -p /opt/lib/perl/VEP/Plugins169 B
40WORKDIR /opt/lib/perl/VEP/Plugins0 B
41/bin/sh -c wget https://raw.githubusercontent.com/Ensembl/VEP_plugins/release/95/Downstream.pm https://raw.githubusercontent.com/griffithlab/pVACtools/master/tools/pvacseq/VEP_plugins/Wildtype.pm316.64 KB
42COPY file:78fde7a92dd8a3dae8640e671cb12ece647e20d1a436e7faf6d1c2fb76909566 in /usr/bin/add_annotations_to_table_helper.py 1.53 KB
43COPY file:ccddec852ac10c36eb8600a71b6aef3323bb47e46aab6d7b21a68d82de63139d in /usr/bin/docm_and_coding_indel_selection.pl 1.1 KB
44COPY file:45a10e583d0e9058a005278434871086e8b7865cd478b4245e834a347c35627e in /usr/bin/vcf_check.pl 941 B
45COPY file:5c2f6d8f8546bfef82dbb9a4d191450f9e4b25fc5a2ed71bb7f6496530f70b13 in /usr/bin/intervals_to_bed.pl 321 B
46COPY file:4d57a807048a846e9360d8f20bdbafd9b9248d8796a67455fd5ec91673f52f99 in /usr/bin/single_sample_docm_filter.pl 602 B
47USER vep0 B

Command

ADD file:916a45030dee881bbc8bbabf8bcfcc8828c29ce1c318000950bbe84c57f9df73 in /