pgkb/pharmcat:3.0.1

Multi-platform

Machine learning & AI

Data science

Index digest

sha256:7352048d288378928bd91fad5263ceba5edc411334338f95b24bcf3d9e9dfa8d

OS/ARCH

Compressed size

1.8 GB

Last pushed

over 1 year by pharmgen

Type

Image

Manifest digest

sha256:d3b16ad89e16171d62352b8c769fc1a5b0bc026b7fa389f3809fde341ceef2f4

Image Layers

Image Layers

1# debian.sh --arch 'arm64' out/46.09 MB

2RUN /bin/sh -c set -eux;22.45 MB

3RUN /bin/sh -c set -eux;61.37 MB

4RUN /bin/sh -c set -ex;193.36 MB

5ENV PATH=/usr/local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B

6ENV LANG=C.UTF-80 B

7RUN /bin/sh -c set -eux;5.95 MB

8ENV GPG_KEY=7169605F62C751356D054A26A821E680E5FA63050 B

9ENV PYTHON_VERSION=3.12.100 B

10ENV PYTHON_SHA256=07ab697474595e06f06647417d3c7fa97ded07afc1a7e4454c5639919b46eaea0 B

11RUN /bin/sh -c set -eux;23.74 MB

12RUN /bin/sh -c set -eux;249 B

13CMD ["python3"]0 B

14RUN /bin/sh -c apt-get update37.43 MB

15RUN /bin/sh -c curl https://packages.adoptium.net/artifactory/api/gpg/key/public184.53 MB

16RUN /bin/sh -c curl https://packages.cloud.google.com/apt/doc/apt-key.gpg163.18 MB

17RUN /bin/sh -c pip3 install9.78 MB

18WORKDIR /usr/local/bin/32 B

19ENV BCFTOOLS_VERSION=1.210 B

20ENV HTSLIB_VERSION=1.210 B

21ENV SAMTOOLS_VERSION=1.210 B

22

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

20.87 MB

23RUN /bin/sh -c tar -xjf23.08 MB

24RUN /bin/sh -c cd /usr/local/bin/htslib-${HTSLIB_VERSION}/112.03 MB

25RUN /bin/sh -c rm -rf252 B

26RUN /bin/sh -c git clone4.44 MB

27RUN /bin/sh -c mkdir /pharmcat98 B

28WORKDIR /pharmcat32 B

29ENV PATH=/usr/local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/pharmcat0 B

30ENV PCAT_PLATFORM=docker0 B

31RUN /bin/sh -c wget https://zenodo.org/record/7288118/files/GRCh38_reference_fasta.tar842.05 MB

32COPY preprocessor/requirements.txt ./ # buildkit194 B

33RUN /bin/sh -c pip3 install69.71 MB

34COPY src/main/config/bashrc /root/.bashrc # buildkit502 B

35COPY preprocessor/pharmcat_vcf_preprocessor preprocessor/pharmcat_pipeline bin/pharmcat bin/calc_allele_freqs26.9 MB

36RUN /bin/sh -c mkdir pcat115 B

37COPY preprocessor/pcat/*.py preprocessor/pcat/*.tsv pcat/ #16.54 KB

38RUN /bin/sh -c mkdir data104.64 KB

39CMD ["/bin/bash"]0 B

Command

# debian.sh --arch 'arm64' out/ 'bookworm' '@1745798400'