pennlinc/qsiprep_build:26.1.5

Manifest digest

sha256:7b485f9e5c8229b7188f13ba6a3ad21e3c7a9b7465db2dfb85fb4265a829044e

OS/ARCH

linux/amd64

Compressed size

8.25 GB

Last pushed

8 months by matthewcieslak

Type

Image

Manifest digest

sha256:7b485f9e5c8229b7188f13ba6a3ad21e3c7a9b7465db2dfb85fb4265a829044e

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/conda/envs/fslqsiprep /opt/conda/envs/fslqsiprep # buildkit588.27 MB

43ENV FSLDIR=/opt/conda/envs/fslqsiprep FSLOUTPUTTYPE=NIFTI_GZ FSLMULTIFILEQUIT=TRUE FSLLOCKDIR=0 B

44COPY /opt/ants /opt/ants # buildkit70.28 MB

45

ENV ANTSPATH=/opt/ants/bin LD_LIBRARY_PATH=/opt/ants/lib:/usr/local/nvidia/lib:/usr/local/nvidia/lib64 PATH=/opt/conda/envs/fslqsiprep/bin:/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

46ENV DSI_STUDIO_DEPS=libqt5charts5 libqt5opengl5 libqt5svg5 libqt5gui50 B

47COPY /opt/mrtrix3-latest /opt/mrtrix3-latest # buildkit41.86 MB

48COPY /opt/3Tissue /opt/3Tissue # buildkit37.21 MB

49

ENV PATH=/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/opt/conda/envs/fslqsiprep/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/mrtrix3-latest/bin:/opt/3Tissue/bin MRTRIX3_DEPS=bzip2 ca-certificates curl

0 B

50COPY /opt/freesurfer /opt/freesurfer # buildkit1.79 GB

51ENV FSL_DIR=/opt/conda/envs/fslqsiprep OS=Linux FS_OVERRIDE=0 FIX_VERTEX_AREA=0 B

52

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

0 B

53

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:/opt/conda/envs/fslqsiprep/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/mrtrix3-latest/bin:/opt/3Tissue/bin FREESURFER_DEPS=bc

0 B

54RUN /bin/sh -c chmod a+rx29.72 KB

55COPY /opt/synb0 /opt/synb0 # buildkit366.51 MB

56ENV SYNB0_ATLASES=/opt/synb0/atlases0 B

57COPY /opt/afni/install/libf2c.so /opt/afni/install/libmri.so /opt/afni/install/libSUMA.so /usr/local/lib/7.02 MB

58COPY /opt/afni/install/3dAutobox /opt/afni/install/3dAutomask /opt/afni/install/3dFWHMx /opt/afni/install/3dQwarp2.64 MB

59

ENV PATH=/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/opt/conda/envs/fslqsiprep/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/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin AFNI_INSTALLDIR=/usr/local/bin AFNI_IMSAVE_WARNINGS=NO

0 B

60COPY /src/TORTOISEV4/bin /src/TORTOISEV4/bin # buildkit26.78 MB

61COPY /src/TORTOISEV4/settings /src/TORTOISEV4/settings # buildkit3.89 KB

62COPY /src/TORTOISEV4/bin/*cuda /src/TORTOISEV4/bin/ # buildkit11.2 MB

63

ENV PATH=/opt/freesurfer/bin:/bin:/opt/freesurfer/tktools:/opt/freesurfer/mni/bin:/opt/dsi-studio:/opt/dsi-studio/dsi_studio_64:/opt/conda/envs/fslqsiprep/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/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin:/src/TORTOISEV4/bin TORTOISE_DEPS=libfftw3-3

0 B

64RUN /bin/sh -c useradd -m4.25 KB

65WORKDIR /home/qsiprep32 B

66COPY /opt/conda/envs/qsiprep /opt/conda/envs/qsiprep # buildkit3.45 GB

67COPY /home/qsiprep/.dipy /home/qsiprep/.dipy # buildkit111.27 MB

68

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:/opt/conda/envs/fslqsiprep/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/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin:/src/TORTOISEV4/bin

0 B

69RUN /bin/sh -c apt-get update131.76 MB

70RUN /bin/sh -c echo "Downloading54.6 MB

71

ENV C3DPATH=/opt/convert3d-nightly PATH=/opt/convert3d-nightly/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:/opt/conda/envs/fslqsiprep/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/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin:/src/TORTOISEV4/bin

0 B

72RUN /bin/sh -c curl -sL33.11 MB

73RUN /bin/sh -c npm install39.15 MB

74RUN /bin/sh -c curl -o25.05 MB

75COPY /opt/dsi-studio /opt/dsi-studio # buildkit199.23 MB

76WORKDIR /opt/art109 B

77

ENV PATH=/opt/art/bin:/opt/convert3d-nightly/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:/opt/conda/envs/fslqsiprep/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/mrtrix3-latest/bin:/opt/3Tissue/bin:/usr/local/bin:/src/TORTOISEV4/bin

0 B

78RUN /bin/sh -c cd /opt/art1.27 MB

79ENV HOME=/home/qsiprep MKL_NUM_THREADS=1 OMP_NUM_THREADS=1 MRTRIX_NTHREADS=10 B

80WORKDIR /root/32 B

81COPY scripts/fetch_templates.py fetch_templates.py # buildkit1.53 KB

82RUN /bin/sh -c python fetch_templates.py44.6 MB

83RUN /bin/sh -c if [2.23 MB

84RUN /bin/sh -c mkdir -p203 B

Command

 ARG RELEASE