Sign inSign up

leepc12/atac-seq-pipeline:latest

Manifest digest

sha256:82a1db66d19bb04d0ceb47d9b6170031ea6ec04296498de9df85b6fd0fbd8f23

OS/ARCH

linux/amd64

Compressed size

1.86 GB

Last pushed

over 8 years by leepc12

Type

Image

Manifest digest

sha256:82a1db66d19bb04d0ceb47d9b6170031ea6ec04296498de9df85b6fd0fbd8f23

Image Layers

Image Layers

1ADD file ... in / 40.76 MB
2/bin/sh -c set -xe &&846 B
3/bin/sh -c rm -rf /var/lib/apt/lists/*621 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 Jin Lee0 B
8/bin/sh -c apt-get update &&426.59 MB
9/bin/sh -c mkdir /software95 B
10WORKDIR /software0 B
11ENV PATH=/software:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
12/bin/sh -c git clone --branch27.64 MB
13/bin/sh -c cd OpenBLAS &&21.93 MB
14ENV LD_LIBRARY_PATH=/opt/openblas/lib:0 B
15/bin/sh -c wget http://zlib.net/zlib-1.2.11.tar.gz &&1.19 MB
16/bin/sh -c cd zlib-1.2.11 &&622.22 KB
17/bin/sh -c wget http://bzip.org/1.0.6/bzip2-1.0.6.tar.gz &&1.5 MB
18/bin/sh -c cd bzip2-1.0.6 &&1.03 MB
19/bin/sh -c wget https://tukaani.org/xz/xz-5.2.3.tar.gz &&2.84 MB
20/bin/sh -c cd xz-5.2.3 &&2.83 MB
21/bin/sh -c pip install common7.55 MB
22/bin/sh -c pip3 install common7.43 MB
23/bin/sh -c wget https://github.com/ottojolanki/numpy/archive/numpy_1.11.3_release.zip &&8.59 MB
24/bin/sh -c cd numpy-numpy_1.11.3_release &&24.86 MB
25/bin/sh -c cd numpy-numpy_1.11.3_release &&26.18 MB
26/bin/sh -c git clone --branch91.35 MB
27/bin/sh -c cd scipy &&157.25 MB
28/bin/sh -c cd scipy &&156.1 MB
29/bin/sh -c git clone --branch266.1 MB
30/bin/sh -c cd matplotlib &&148.45 MB
31/bin/sh -c cd matplotlib &&148.73 MB
32/bin/sh -c pip install --no-dependencies10.41 MB
33/bin/sh -c git clone --branch69.8 MB
34/bin/sh -c cd idr &&352.71 KB
35/bin/sh -c wget http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bedClip1.63 MB
36/bin/sh -c chmod +x bedClip1.63 MB
37/bin/sh -c wget http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bedGraphToBigWig1.64 MB
38/bin/sh -c chmod +x bedGraphToBigWig1.64 MB
39/bin/sh -c git clone --branch12.19 MB
40/bin/sh -c git clone --branch5.14 MB
41/bin/sh -c cd samtools &&11.6 MB
42/bin/sh -c git clone --branch57.5 MB
43/bin/sh -c cd bedtools2 &&3.36 MB
44/bin/sh -c wget https://github.com/broadinstitute/picard/releases/download/2.10.6/picard.jar29.96 MB
45/bin/sh -c chmod +x picard.jar29.96 MB
46/bin/sh -c wget https://github.com/lomereiter/sambamba/releases/download/v0.6.5/sambamba_v0.6.5_linux.tar.bz2 &&2.8 MB
47/bin/sh -c mv sambamba_v0.6.5 sambamba1.47 MB
48/bin/sh -c echo "r <-211 B
49/bin/sh -c Rscript -e "install.packages('snow')"59.58 KB
50/bin/sh -c Rscript -e "install.packages('snowfall')"355.59 KB
51/bin/sh -c Rscript -e "install.packages('bitops')"25.11 KB
52/bin/sh -c Rscript -e "install.packages('caTools')"184.52 KB
53/bin/sh -c Rscript -e "source('http://bioconductor.org/biocLite.R');42.04 MB
54/bin/sh -c wget https://github.com/hms-dbmi/spp/archive/1.13.tar.gz83.9 KB
55/bin/sh -c Rscript -e "install.packages('./1.13.tar.gz')"576.87 KB
56/bin/sh -c wget https://github.com/kundajelab/phantompeakqualtools/archive/1.2.tar.gz &&240.99 KB
57ENV PATH=/software/phantompeakqualtools-1.2:/software:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
58/bin/sh -c pip install --no-dependencies1.3 MB
59/bin/sh -c wget https://github.com/BenLangmead/bowtie2/releases/download/v2.2.6/bowtie2-2.2.6-linux-x86_64.zip25.58 MB
60/bin/sh -c unzip bowtie2-2.2.6-linux-x86_64.zip25.61 MB
61ENV PATH=/software/bowtie2-2.2.6:/software/phantompeakqualtools-1.2:/software:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
62/bin/sh -c mkdir -p atac-seq-pipeline/src147 B
63COPY dir:484d5bf3975c09cd159e674b13248f5e6a38381aa989bd3ee4b87a2f997b4842 in atac-seq-pipeline/src 25.44 KB
64ENV PATH=/software/atac-seq-pipeline/src:/software/bowtie2-2.2.6:/software/phantompeakqualtools-1.2:/software:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
65ENTRYPOINT ["/bin/bash" "-c"]0 B

Command

ADD file:f5a2d04c3f3cafada15eb32e4e8d971e48ef11724939c399a8664bf498111e67 in /