pennlinc/qsirecon:1.2.0

Manifest digest

sha256:7d2a525a2693ea17cb0d387c6fe65d53e23cfa41e8959ba0c42f2a35716ef2a8

OS/ARCH

linux/amd64

Compressed size

8.01 GB

Last pushed

7 months by tsalo

Type

Image

Manifest digest

sha256:7d2a525a2693ea17cb0d387c6fe65d53e23cfa41e8959ba0c42f2a35716ef2a8

Image Layers

Image Layers

1ARG RELEASE0 B

2ARG LAUNCHPAD_BUILD_ARCH0 B

3LABEL org.opencontainers.image.ref.name=ubuntu0 B

4LABEL org.opencontainers.image.version=22.040 B

5ADD file ... in / 28.17 MB

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

7ENV NVARCH=x86_640 B

8

ENV NVIDIA_REQUIRE_CUDA=cuda>=12.2 brand=tesla,driver>=470,driver<471 brand=unknown,driver>=470,driver<471 brand=nvidia,driver>=470,driver<471

0 B

9ENV NV_CUDA_CUDART_VERSION=12.2.140-10 B

10ENV NV_CUDA_COMPAT_PACKAGE=cuda-compat-12-20 B

11ARG TARGETARCH0 B

12LABEL maintainer=NVIDIA CORPORATION <[email protected]>0 B

13RUN |1 TARGETARCH=amd64 /bin/sh -c4.41 MB

14ENV CUDA_VERSION=12.2.20 B

15RUN |1 TARGETARCH=amd64 /bin/sh -c53.48 MB

16RUN |1 TARGETARCH=amd64 /bin/sh -c184 B

17ENV PATH=/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B

18ENV LD_LIBRARY_PATH=/usr/local/nvidia/lib:/usr/local/nvidia/lib640 B

19COPY NGC-DL-CONTAINER-LICENSE / # buildkit6.72 KB

20ENV NVIDIA_VISIBLE_DEVICES=all0 B

21ENV NVIDIA_DRIVER_CAPABILITIES=compute,utility0 B

22ENV NV_CUDA_LIB_VERSION=12.2.2-10 B

23ENV NV_NVTX_VERSION=12.2.140-10 B

24ENV NV_LIBNPP_VERSION=12.2.1.4-10 B

25ENV NV_LIBNPP_PACKAGE=libnpp-12-2=12.2.1.4-10 B

26ENV NV_LIBCUSPARSE_VERSION=12.1.2.141-10 B

27ENV NV_LIBCUBLAS_PACKAGE_NAME=libcublas-12-20 B

28ENV NV_LIBCUBLAS_VERSION=12.2.5.6-10 B

29ENV NV_LIBCUBLAS_PACKAGE=libcublas-12-2=12.2.5.6-10 B

30ENV NV_LIBNCCL_PACKAGE_NAME=libnccl20 B

31ENV NV_LIBNCCL_PACKAGE_VERSION=2.19.3-10 B

32ENV NCCL_VERSION=2.19.3-10 B

33ENV NV_LIBNCCL_PACKAGE=libnccl2=2.19.3-1+cuda12.20 B

34ARG TARGETARCH0 B

35LABEL maintainer=NVIDIA CORPORATION <[email protected]>0 B

36RUN |1 TARGETARCH=amd64 /bin/sh -c1.18 GB

37RUN |1 TARGETARCH=amd64 /bin/sh -c62.34 KB

38COPY entrypoint.d/ /opt/nvidia/entrypoint.d/ # buildkit1.65 KB

39COPY nvidia_entrypoint.sh /opt/nvidia/ # buildkit1.49 KB

40ENV NVIDIA_PRODUCT_NAME=CUDA0 B

41ENTRYPOINT ["/opt/nvidia/nvidia_entrypoint.sh"]0 B

42COPY /opt/ants /opt/ants # buildkit70.28 MB

43

ENV ANTSPATH=/opt/ants/bin LD_LIBRARY_PATH=/opt/ants/lib:/usr/local/nvidia/lib:/usr/local/nvidia/lib64 PATH=/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/ants/bin ANTS_DEPS=zlib1g

0 B

44ENV DSI_STUDIO_DEPS=libqt5charts5 libqt5opengl5 libqt5svg5 libqt5gui50 B

45COPY /opt/mrtrix3-latest /opt/mrtrix3-latest # buildkit41.86 MB

46COPY /opt/3Tissue /opt/3Tissue # buildkit37.21 MB

47

ENV PATH=/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/ants/bin:/opt/dsi-studio-chen:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin MRTRIX3_DEPS=bzip2 ca-certificates curl

0 B

48COPY /opt/freesurfer /opt/freesurfer # buildkit1.79 GB

49ENV FSL_DIR=/opt/conda/envs/fslqsirecon OS=Linux FS_OVERRIDE=0 FIX_VERTEX_AREA=0 B

50

ENV SUBJECTS_DIR=/opt/freesurfer/subjects FUNCTIONALS_DIR=/opt/freesurfer/sessions MNI_DIR=/opt/freesurfer/mni LOCAL_DIR=/opt/freesurfer/local

0 B

51

ENV PERL5LIB=/opt/freesurfer/mni/lib/perl5/5.8.5 MNI_PERL5LIB=/opt/freesurfer/mni/lib/perl5/5.8.5 PATH=/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/ants/bin:/opt/dsi-studio-chen:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin FREESURFER_DEPS=bc

0 B

52RUN /bin/sh -c chmod a+rx29.72 KB

53COPY /opt/afni/install/libf2c.so /opt/afni/install/libmri.so /opt/afni/install/libSUMA.so /usr/local/lib/7.02 MB

54COPY /opt/afni/install/3dAutobox /opt/afni/install/3dAutomask /opt/afni/install/3dFWHMx /opt/afni/install/3dQwarp2.64 MB

55

ENV PATH=/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/ants/bin:/opt/dsi-studio-chen:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin AFNI_INSTALLDIR=/usr/local/bin AFNI_IMSAVE_WARNINGS=NO

0 B

56COPY /src/TORTOISEV4/bin /src/TORTOISEV4/bin # buildkit26.78 MB

57COPY /src/TORTOISEV4/settings /src/TORTOISEV4/settings # buildkit3.89 KB

58COPY /src/TORTOISEV4/bin/*cuda /src/TORTOISEV4/bin/ # buildkit11.2 MB

59

ENV PATH=/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/ants/bin:/opt/dsi-studio-chen:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin:/src/TORTOISEV4/bin TORTOISE_DEPS=fftw3

0 B

60RUN /bin/sh -c useradd -m4.25 KB

61WORKDIR /home/qsiprep32 B

62COPY /opt/conda/envs/qsiprep /opt/conda/envs/qsiprep # buildkit3.49 GB

63COPY /home/qsiprep/.dipy /home/qsiprep/.dipy # buildkit111.27 MB

64

ENV PATH=/opt/conda/envs/qsiprep/bin:/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/ants/bin:/opt/dsi-studio-chen:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin:/src/TORTOISEV4/bin

0 B

65RUN /bin/sh -c apt-get update138.94 MB

66RUN /bin/sh -c apt-get update43.42 MB

67RUN /bin/sh -c npm install39.16 MB

68RUN /bin/sh -c curl -o25.06 MB

69COPY /opt/dsi-studio /opt/dsi-studio # buildkit199.23 MB

70COPY /opt/dsi-studio/dsi_studio_64 /opt/dsi-studio-chen # buildkit163.29 MB

71RUN /bin/sh -c mv /opt/dsi-studio-chen/dsi_studio3.16 MB

72WORKDIR /opt/art110 B

73

ENV PATH=/opt/art/bin:/opt/conda/envs/qsiprep/bin:/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/ants/bin:/opt/dsi-studio-chen:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin:/src/TORTOISEV4/bin

0 B

74RUN /bin/sh -c cd /opt/art1.27 MB

75RUN /bin/sh -c mkdir /opt/workbench83.59 MB

76

ENV PATH=/opt/workbench/bin_linux64:/opt/art/bin:/opt/conda/envs/qsiprep/bin:/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/ants/bin:/opt/dsi-studio-chen:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin:/src/TORTOISEV4/bin LD_LIBRARY_PATH=/opt/workbench/lib_linux64:/opt/ants/lib:/usr/local/nvidia/lib:/usr/local/nvidia/lib64

0 B

77ENV HOME=/home/qsiprep MKL_NUM_THREADS=1 OMP_NUM_THREADS=1 MRTRIX_NTHREADS=10 B

78WORKDIR /root/32 B

79COPY scripts/fetch_templates.py fetch_templates.py # buildkit1.53 KB

80RUN /bin/sh -c python fetch_templates.py44.6 MB

81RUN /bin/sh -c if [2.23 MB

82RUN /bin/sh -c mkdir /atlas95 B

83RUN /bin/sh -c mkdir /atlas/AtlasPack118 B

84COPY /AtlasPack/tpl-fsLR_*.dlabel.nii /atlas/AtlasPack/ # buildkit2.22 MB

85COPY /AtlasPack/tpl-MNI152NLin6Asym_*.nii.gz /atlas/AtlasPack/ # buildkit6.15 MB

86COPY /AtlasPack/tpl-MNI152NLin2009cAsym_*.nii.gz /atlas/AtlasPack/ # buildkit6.72 MB

87COPY /AtlasPack/atlas-4S*.tsv /atlas/AtlasPack/ # buildkit89.18 KB

88COPY /AtlasPack/*.json /atlas/AtlasPack/ # buildkit5.44 KB

89ENV QSIRECON_ATLASPACK=/atlas/AtlasPack0 B

90COPY scripts/fix_atlaspack.py fix_atlaspack.py # buildkit860 B

91RUN /bin/sh -c python fix_atlaspack.py15.26 MB

92RUN /bin/sh -c bash -c2.88 MB

93ENV QSIRECON_ATLAS=/atlas/qsirecon_atlases0 B

94RUN /bin/sh -c pyAFQ download4.49 MB

95RUN /bin/sh -c mkdir -p216 B

96COPY . /src/qsirecon # buildkit21.52 MB

97RUN /bin/sh -c pip install207.86 MB

98RUN /bin/sh -c python -c12.28 KB

99RUN /bin/sh -c find $HOME181.92 MB

100RUN /bin/sh -c ldconfig #8.3 KB

101WORKDIR /tmp/32 B

102ENTRYPOINT ["/opt/conda/envs/qsiprep/bin/qsirecon"]0 B

103ARG BUILD_DATE0 B

104ARG VCS_REF0 B

105ARG VERSION0 B

106

LABEL org.label-schema.build-date=2026-02-18T19:00:18Z org.label-schema.name=qsirecon org.label-schema.description=qsirecon -

0 B

Command

 ARG RELEASE