pennlinc/qsirecon:1.0.0rc1

Manifest digest

sha256:f455b2bd3a6f0bbd4456d79df3a68be512813e06b1a15b36f2c6a8beff588972

OS/ARCH

linux/amd64

Compressed size

6.83 GB

Last pushed

almost 2 years by tsalo

Type

Image

Manifest digest

sha256:f455b2bd3a6f0bbd4456d79df3a68be512813e06b1a15b36f2c6a8beff588972

Image Layers

Image Layers

1ADD file ... in / 25.48 MB

2CMD ["bash"]0 B

3ENV NVARCH=x86_640 B

4ENV NVIDIA_REQUIRE_CUDA=cuda>=11.1 brand=tesla,driver>=418,driver<419 brand=tesla,driver>=450,driver<4510 B

5ENV NV_CUDA_CUDART_VERSION=11.1.74-10 B

6ENV NV_CUDA_COMPAT_PACKAGE=cuda-compat-11-10 B

7ARG TARGETARCH0 B

8LABEL maintainer=NVIDIA CORPORATION <[email protected]>0 B

9RUN |1 TARGETARCH=amd64 /bin/sh -c6.88 MB

10ENV CUDA_VERSION=11.1.10 B

11RUN |1 TARGETARCH=amd64 /bin/sh -c10.29 MB

12RUN |1 TARGETARCH=amd64 /bin/sh -c186 B

13ENV PATH=/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin0 B

14ENV LD_LIBRARY_PATH=/usr/local/nvidia/lib:/usr/local/nvidia/lib640 B

15COPY NGC-DL-CONTAINER-LICENSE / # buildkit6.28 KB

16ENV NVIDIA_VISIBLE_DEVICES=all0 B

17ENV NVIDIA_DRIVER_CAPABILITIES=compute,utility0 B

18ENV NV_CUDA_LIB_VERSION=11.1.1-10 B

19ENV NV_NVTX_VERSION=11.1.74-10 B

20ENV NV_LIBNPP_VERSION=11.1.2.301-10 B

21ENV NV_LIBNPP_PACKAGE=libnpp-11-1=11.1.2.301-10 B

22ENV NV_LIBCUSPARSE_VERSION=11.3.0.10-10 B

23ENV NV_LIBCUBLAS_PACKAGE_NAME=libcublas-11-10 B

24ENV NV_LIBCUBLAS_VERSION=11.3.0.106-10 B

25ENV NV_LIBCUBLAS_PACKAGE=libcublas-11-1=11.3.0.106-10 B

26ENV NV_LIBNCCL_PACKAGE_NAME=libnccl20 B

27ENV NV_LIBNCCL_PACKAGE_VERSION=2.8.4-10 B

28ENV NCCL_VERSION=2.8.4-10 B

29ENV NV_LIBNCCL_PACKAGE=libnccl2=2.8.4-1+cuda11.10 B

30ARG TARGETARCH0 B

31LABEL maintainer=NVIDIA CORPORATION <[email protected]>0 B

32RUN |1 TARGETARCH=amd64 /bin/sh -c1.41 GB

33RUN |1 TARGETARCH=amd64 /bin/sh -c61.93 KB

34COPY /opt/ants /opt/ants # buildkit85.08 MB

35

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-dev

0 B

36ENV QT_BASE_DIR=/opt/qt5120 B

37

ENV QTDIR=/opt/qt512 LD_LIBRARY_PATH=/opt/qt512/lib/x86_64-linux-gnu:/opt/qt512/lib:/opt/ants/lib:/usr/local/nvidia/lib:/usr/local/nvidia/lib64 PKG_CONFIG_PATH=/opt/qt512/lib/pkgconfig: PATH=/opt/qt512/bin:/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

0 B

38COPY /opt/mrtrix3-latest /opt/mrtrix3-latest # buildkit39.89 MB

39COPY /opt/3Tissue /opt/3Tissue # buildkit35.53 MB

40

ENV PATH=/opt/qt512/bin:/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:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin MRTRIX3_DEPS=bzip2 ca-certificates curl

0 B

41COPY /opt/freesurfer /opt/freesurfer # buildkit584.67 MB

42ENV FSL_DIR=/opt/conda/envs/fslqsirecon OS=Linux FS_OVERRIDE=0 FIX_VERTEX_AREA=0 B

43

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

0 B

44

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/qt512/bin:/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:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin FREESURFER_DEPS=bc

0 B

45RUN /bin/sh -c chmod a+rx28.87 KB

46COPY /opt/afni-latest /opt/afni-latest # buildkit43.3 MB

47

ENV PATH=/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/qt512/bin:/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:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/opt/afni-latest AFNI_INSTALLDIR=/opt/afni-latest AFNI_IMSAVE_WARNINGS=NO

0 B

48COPY /src/TORTOISEV4/bin /src/TORTOISEV4/bin # buildkit26.53 MB

49COPY /src/TORTOISEV4/settings /src/TORTOISEV4/settings # buildkit3.9 KB

50COPY /usr/local/boost176 /usr/local/boost176 # buildkit14.57 MB

51COPY /src/TORTOISEV4/bin/*cuda /src/TORTOISEV4/bin/ # buildkit10.78 MB

52

ENV PATH=/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/qt512/bin:/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:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/opt/afni-latest:/src/TORTOISEV4/bin TORTOISE_DEPS=fftw3

0 B

53RUN /bin/sh -c useradd -m4.4 KB

54WORKDIR /home/qsiprep32 B

55COPY /opt/conda/envs/qsiprep /opt/conda/envs/qsiprep # buildkit3.26 GB

56COPY /home/qsiprep/.dipy /home/qsiprep/.dipy # buildkit111.22 MB

57

ENV PATH=/opt/conda/envs/qsiprep/bin:/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/qt512/bin:/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:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/opt/afni-latest:/src/TORTOISEV4/bin

0 B

58RUN /bin/sh -c apt-get update87.27 MB

59RUN /bin/sh -c apt-get update41.15 MB

60RUN /bin/sh -c npm install48.1 MB

61RUN /bin/sh -c curl -o25.06 MB

62RUN /bin/sh -c add-apt-repository ppa:beineri/opt-qt-5.12.8-bionic103.61 MB

63COPY /opt/dsi-studio /opt/dsi-studio # buildkit199.15 MB

64RUN /bin/sh -c add-apt-repository ppa:ubuntu-toolchain-r/test1.41 MB

65WORKDIR /opt/art110 B

66

ENV PATH=/opt/art/bin:/opt/conda/envs/qsiprep/bin:/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/qt512/bin:/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:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/opt/afni-latest:/src/TORTOISEV4/bin

0 B

67RUN /bin/sh -c cd /opt/art1.27 MB

68RUN /bin/sh -c apt-get update32.46 MB

69RUN /bin/sh -c mkdir /opt/workbench83.59 MB

70

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/qt512/bin:/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:/opt/mrtrix3-latest/bin:/opt/3Tissue/bin:/opt/afni-latest:/src/TORTOISEV4/bin LD_LIBRARY_PATH=/opt/workbench/lib_linux64:/opt/qt512/lib/x86_64-linux-gnu:/opt/qt512/lib:/opt/ants/lib:/usr/local/nvidia/lib:/usr/local/nvidia/lib64

0 B

71ENV HOME=/home/qsiprep MKL_NUM_THREADS=1 OMP_NUM_THREADS=1 MRTRIX_NTHREADS=10 B

72WORKDIR /root/32 B

73COPY scripts/fetch_templates.py fetch_templates.py # buildkit1.53 KB

74RUN /bin/sh -c python fetch_templates.py44.6 MB

75RUN /bin/sh -c strip --remove-section=.note.ABI-tag2.6 MB

76RUN /bin/sh -c mkdir /atlas95 B

77RUN /bin/sh -c mkdir /atlas/AtlasPack117 B

78COPY /AtlasPack/tpl-fsLR_*.dlabel.nii /atlas/AtlasPack/ # buildkit2.22 MB

79COPY /AtlasPack/tpl-MNI152NLin6Asym_*.nii.gz /atlas/AtlasPack/ # buildkit6.15 MB

80COPY /AtlasPack/tpl-MNI152NLin2009cAsym_*.nii.gz /atlas/AtlasPack/ # buildkit6.72 MB

81COPY /AtlasPack/atlas-4S*.tsv /atlas/AtlasPack/ # buildkit89.18 KB

82COPY /AtlasPack/*.json /atlas/AtlasPack/ # buildkit5.44 KB

83ENV QSIRECON_ATLASPACK=/atlas/AtlasPack0 B

84COPY scripts/fix_atlaspack.py fix_atlaspack.py # buildkit859 B

85RUN /bin/sh -c python fix_atlaspack.py15.26 MB

86RUN /bin/sh -c bash -c2.88 MB

87ENV QSIRECON_ATLAS=/atlas/qsirecon_atlases0 B

88RUN /bin/sh -c pyAFQ download4.47 MB

89RUN /bin/sh -c mkdir -p216 B

90COPY . /src/qsirecon # buildkit196.1 MB

91RUN /bin/sh -c pip install129.11 MB

92RUN /bin/sh -c python -c12.29 KB

93RUN /bin/sh -c find $HOME181.44 MB

94RUN /bin/sh -c ldconfig #11.47 KB

95WORKDIR /tmp/32 B

96ENTRYPOINT ["/opt/conda/envs/qsiprep/bin/qsirecon"]0 B

97ARG BUILD_DATE0 B

98ARG VCS_REF0 B

99ARG VERSION0 B

100

LABEL org.label-schema.build-date=2024-11-20T17:18:06Z org.label-schema.name=qsirecon org.label-schema.description=qsirecon -

0 B

Command

ADD file:fc5d658c47ede58827812b75a311353be776e41e2dd339b8906839527c9b5247 in /