pgkb/pharmcat:latest

Multi-platform

Machine learning & AI

Data science

Index digest

sha256:bc498d55c33094002bd7e14221a6b3fcd7243a587675369bc1a5ecf6ac0e5319

OS/ARCH

Compressed size

1.84 GB

Last pushed

2 months by pharmgen

Type

Image

Manifest digest

sha256:5f742b225204dcfb63d1b8ba4ddd4b8e41d266ca692f2b027582ba31992b8a71

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 update58.53 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.gpg156.71 MB

15RUN /bin/sh -c pip3 install18.72 MB

16WORKDIR /usr/local/bin/32 B

17ENV BCFTOOLS_VERSION=1.240 B

18ENV HTSLIB_VERSION=1.240 B

19ENV SAMTOOLS_VERSION=1.240 B

20

RUN /bin/sh -c wget https://github.com/samtools/htslib/releases/download/${HTSLIB_VERSION}/htslib-${HTSLIB_VERSION}.tar.bz2

21.68 MB

21RUN /bin/sh -c tar -xjf23.87 MB

22RUN /bin/sh -c cd /usr/local/bin/htslib-${HTSLIB_VERSION}/130.92 MB

23RUN /bin/sh -c rm -rf248 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 ./ # buildkit191 B

30RUN /bin/sh -c pip3 install66.37 MB

31COPY src/main/config/bashrc /root/.bashrc # buildkit502 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 data121.91 KB

36CMD ["/bin/bash"]0 B

Command

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