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ncauldronbroad/gatk_ncbi:v0.2

Manifest digest

sha256:c0aa4a08fc65312c540528ddce78432dd2e3ff9b2338fdac2e736e4bd39ee701

OS/ARCH

linux/amd64

Compressed size

2.43 GB

Last pushed

5 months by ncauldronbroad

Type

Image

Manifest digest

sha256:c0aa4a08fc65312c540528ddce78432dd2e3ff9b2338fdac2e736e4bd39ee701

Image Layers

Image Layers

1ARG RELEASE0 B
2ARG LAUNCHPAD_BUILD_ARCH0 B
3LABEL org.opencontainers.image.ref.name=ubuntu0 B
4LABEL org.opencontainers.image.version=22.040 B
5ADD file ... in / 28.18 MB
6CMD ["/bin/bash"]0 B
7ENV DEBIAN_FRONTEND=noninteractive0 B
8/bin/sh -c apt update &&363.22 MB
9/bin/sh -c java -version131 B
10/bin/sh -c echo "deb [signed-by=/usr/share/keyrings/cloud.google.gpg]49.34 MB
11ENV HOME=/root0 B
12WORKDIR /root0 B
13CMD ["bash"]0 B
14ENV JAVA_LIBRARY_PATH=/usr/lib/jni0 B
15ENV DOWNLOAD_DIR=/downloads0 B
16ENV CONDA_URL=https://repo.anaconda.com/miniconda/Miniconda3-py310_23.10.0-1-Linux-x86_64.sh0 B
17ENV CONDA_SHA256=c7a34df472feb69805b64df6e8db58363c5ccab41cd3b40b07e3e6dfb924359a0 B
18ENV CONDA_PATH=/opt/miniconda0 B
19ENV PATH=/opt/miniconda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
20/bin/sh -c mkdir $DOWNLOAD_DIR &&123.27 MB
21/bin/sh -c rm /etc/apt/sources.list.d/google-cloud-sdk.list &&455 B
22WORKDIR /gatk127 B
23/bin/sh -c chmod -R a+rw93 B
24COPY dir:09a895dc0a04195a24fd3ee2985b37acc9fc9e639e456ab58578a375cf71fd2f in . 701.51 MB
25/bin/sh -c ln -s $(146 B
26/bin/sh -c ln -s $(147 B
27/bin/sh -c ln -s $(144 B
28WORKDIR /root0 B
29/bin/sh -c java -jar gatk.jar131 B
30/bin/sh -c mkdir /gatkCloneMountPoint142 B
31/bin/sh -c mkdir /jars127 B
32/bin/sh -c mkdir .gradle153 B
33WORKDIR /gatk0 B
34ENV CI=true0 B
35/bin/sh -c echo "source activate556 B
36WORKDIR /root0 B
37/bin/sh -c cp -r /root/run_unit_tests.sh557 B
38/bin/sh -c cp -r gatk.jar145 B
39ENV CLASSPATH=/gatk/gatk.jar:0 B
40WORKDIR /gatk0 B
41ENV PATH=/opt/miniconda/envs/gatk/bin:/opt/miniconda/bin:/opt/miniconda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
42/bin/sh -c conda env create1.07 GB
43CMD ["bash" "--init-file" "/gatk/gatkenv.rc"]0 B
44ENV PATH=/gatk:/opt/miniconda/envs/gatk/bin:/opt/miniconda/bin:/opt/miniconda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
45ENV TERM=xterm-256color0 B
46LABEL SAMTOOLS_VER=1.130 B
47LABEL BCFTOOLS_VER=1.130 B
48LABEL BWA_VER=0.7.170 B
49LABEL GATK_VER=4.5.0.00 B
50LABEL Description=GATK + NCBI BLAST0 B
51COPY /blast /blast # buildkit51.81 MB
52COPY /blast/bin/ /blast/bin/ # buildkit3.36 MB
53COPY /blast/lib/ /blast/lib/ # buildkit36.61 MB
54COPY /tmp/edirect.tar /tmp/edirect.tar # buildkit14.78 MB
55RUN /bin/sh -c mkdir -p14.77 MB
56COPY blast_dbs /blast/blastdb # buildkit4.72 MB
57RUN /bin/sh -c if [4.72 MB
58RUN /bin/sh -c set -eux;9.51 KB
59ENV LD_LIBRARY_PATH=/blast/lib:/usr/lib/x86_64-linux-gnu0 B
60ENV PATH=/root/edirect:/blast/bin:/gatk:/opt/miniconda/envs/gatk/bin:/opt/miniconda/bin:/opt/miniconda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
61ENV BLASTDB=/blast/blastdb:/blast/blastdb_custom0 B
62CMD ["/bin/bash"]0 B

Command

 ARG RELEASE