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pgkb/pharmcat:3.3.0

Multi-platform
Machine learning & AI
Data science
Index digest

sha256:e9b02865a0abe1a0085ac0d7625f1ec33a06a56e9571d5befb16f90d4fedc435

OS/ARCH

Compressed size

1.82 GB

Last pushed

2 months by pharmgen

Type

Image

Manifest digest

sha256:fa42854add51b6bb91c46ce92f3b04f7a261cd0d37ce8c0a1731f6c984c8208b

Image Layers

Image Layers

1# debian.sh --arch 'amd64' out/47.03 MB
2RUN /bin/sh -c set -eux;24.45 MB
3RUN /bin/sh -c set -eux;64.64 MB
4RUN /bin/sh -c set -ex;225.3 MB
5ENV PATH=/usr/local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B
6RUN /bin/sh -c set -eux;5.8 MB
7ENV PYTHON_VERSION=3.14.60 B
8ENV PYTHON_SHA256=143b1dddefaec3bd2e21e3b839b34a2b7fb9842272883c576420d605e9f30c630 B
9RUN /bin/sh -c set -eux;28.27 MB
10RUN /bin/sh -c set -eux;249 B
11CMD ["python3"]0 B
12RUN /bin/sh -c apt-get update40.84 MB
13RUN /bin/sh -c curl https://packages.adoptium.net/artifactory/api/gpg/key/public137.85 MB
14RUN /bin/sh -c curl https://packages.cloud.google.com/apt/doc/apt-key.gpg156.7 MB
15RUN /bin/sh -c pip3 install18.72 MB
16WORKDIR /usr/local/bin/32 B
17ENV BCFTOOLS_VERSION=1.23.10 B
18ENV HTSLIB_VERSION=1.23.10 B
19ENV SAMTOOLS_VERSION=1.23.10 B
20RUN /bin/sh -c wget https://github.com/samtools/htslib/releases/download/${HTSLIB_VERSION}/htslib-${HTSLIB_VERSION}.tar.bz221.56 MB
21RUN /bin/sh -c tar -xjf23.77 MB
22RUN /bin/sh -c cd /usr/local/bin/htslib-${HTSLIB_VERSION}/128.51 MB
23RUN /bin/sh -c rm -rf250 B
24RUN /bin/sh -c mkdir /pharmcat98 B
25WORKDIR /pharmcat32 B
26ENV PATH=/usr/local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/pharmcat0 B
27ENV PCAT_PLATFORM=docker0 B
28RUN /bin/sh -c wget https://zenodo.org/record/7288118/files/GRCh38_reference_fasta.tar842.05 MB
29COPY preprocessor/requirements.txt ./ # buildkit190 B
30RUN /bin/sh -c pip3 install66.37 MB
31COPY src/main/config/bashrc /root/.bashrc # buildkit500 B
32COPY preprocessor/pharmcat_vcf_preprocessor preprocessor/pharmcat_pipeline bin/pharmcat bin/calc_allele_freqs27.27 MB
33RUN /bin/sh -c mkdir pcat115 B
34COPY preprocessor/pcat/*.py preprocessor/pcat/*.tsv pcat/ #17.3 KB
35RUN /bin/sh -c mkdir data121.86 KB
36CMD ["/bin/bash"]0 B

Command

# debian.sh --arch 'amd64' out/ 'trixie' '@1782172800'