mgibio/dna-alignment:latest

Machine learning & AI

Data science

Manifest digest

sha256:4dedfd9e4d8dbcc213d327b037c28d7511e4f5b5e2de1df8102963741d5579e9

OS/ARCH

linux/amd64

Compressed size

1.28 GB

Last pushed

over 8 years by mgibio

Type

Image

Manifest digest

sha256:4dedfd9e4d8dbcc213d327b037c28d7511e4f5b5e2de1df8102963741d5579e9

Image Layers

Image Layers

1ADD file ... in / 41.03 MB

2/bin/sh -c set -xe &&847 B

3/bin/sh -c rm -rf /var/lib/apt/lists/*619 B

4/bin/sh -c sed -i 's/^#\s*$deb.*universe$$/\1/g'854 B

5/bin/sh -c mkdir -p /run/systemd170 B

6CMD ["/bin/bash"]0 B

7MAINTAINER Thomas B. Mooney0 B

8LABEL description=Image for tools0 B

9/bin/sh -c apt-get update -y388.79 MB

10/bin/sh -c mkdir /opt/sambamba/ 2.83 MB

11ENV BWA_VERSION=0.7.150 B

12/bin/sh -c cd /tmp/ 710.34 KB

13ENV HTSLIB_INSTALL_DIR=/opt/htslib0 B

14WORKDIR /tmp0 B

15/bin/sh -c wget https://github.com/samtools/htslib/releases/download/1.3.2/htslib-1.3.2.tar.bz2 &&1.98 MB

16WORKDIR /tmp/htslib-1.3.20 B

17/bin/sh -c ./configure --enable-plugins18.55 MB

18ENV SAMTOOLS_INSTALL_DIR=/opt/samtools0 B

19WORKDIR /tmp0 B

20/bin/sh -c wget https://github.com/samtools/samtools/releases/download/1.3.1/samtools-1.3.1.tar.bz2 &&8.45 MB

21WORKDIR /tmp/samtools-1.3.10 B

22/bin/sh -c ./configure --with-htslib=$HTSLIB_INSTALL_DIR --prefix=$SAMTOOLS_INSTALL_DIR3.51 MB

23WORKDIR /0 B

24/bin/sh -c rm -rf /tmp/samtools-1.3.1135 B

25/bin/sh -c cd /tmp/ 19.1 KB

26ENV maven_package_name=apache-maven-3.3.90 B

27ENV gatk_dir_name=gatk-protected0 B

28ENV gatk_version=3.60 B

29/bin/sh -c cd /tmp/ &&8.12 MB

30/bin/sh -c cd /tmp/ 620.7 MB

31/bin/sh -c cd /opt/ &&80.5 MB

32/bin/sh -c mkdir /opt/picard-2.18.1/ 11.69 MB

33/bin/sh -c wget --no-check-certificate https://github.com/fulcrumgenomics/fgbio/releases/download/0.5.0/fgbio-0.5.0.jar25.36 MB

34/bin/sh -c pip install --upgrade17.45 MB

35/bin/sh -c Rscript -e 'install.packages("ggplot2",82.41 MB

36/bin/sh -c ln -sf /usr/share/zoneinfo/America/Chicago374.34 KB

37COPY file:2b6214c1273c601478cc941b40443431e07b50a70bd68ef711fe4f0554dc7cb5 in /usr/bin/alignment_helper.sh 386 B

38COPY file:5ba5e797437ed2aaf494adc0439366248b53d6b3ab2b067a689a89f1bb6118f9 in /usr/bin/markduplicates_helper.sh 469 B

39COPY file:1afca6f2a451ec67c1bcc3797120744569b79b2a5bbcc18a2e2d6cc3fe3f1726 in /usr/bin/umi_alignment.sh 651 B

40COPY file:dc6c53de2402e69ce8292d04c10e8ebc5ad5c67b890de87c70b5af292b4493ee in /usr/bin/umi_realignment.sh 679 B

Command

ADD file:4c266e490f4101f9726598288c14131a75242836f3eda375923ef1677ea8ab8e in /