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Nvidia
Nvidia Clara Parabricks rna-fq2bam
Container
Nvidia
Nvidia Clara Parabricks rna-fq2bam

Run RNA-seq data through the fq2bam pipeline. It will run STAR aligner, co-ordinate sorting and mark duplicates.

LayerLabelCreated
sha256:a3ed95caeb02ffe68cdd9fd84406680ae93d633cb16422d00e8a7c22955b46d4ENTRYPOINT
—
09/19/2022 11:09 PM UTC
sha256:1b22c9245c9b980e10da30841496b9d05829a4fddc741b65ae6cd9f6bd5d3976RUN
apt update &&
  apt update --fix-missing &&
  apt -y upgrade
09/19/2022 11:09 PM UTC
sha256:64785e41b96edfbaad875ccfddbc3ca4f4ba58cf08416bd6c7ba2b21024d1174RUN
bash
09/19/2022 11:09 PM UTC
sha256:a3ed95caeb02ffe68cdd9fd84406680ae93d633cb16422d00e8a7c22955b46d4ENV
NVIDIA_DRIVER_CAPABILITIES=compute,utility
07/11/2022 8:49 PM UTC
sha256:a3ed95caeb02ffe68cdd9fd84406680ae93d633cb16422d00e8a7c22955b46d4ENV
NVIDIA_VISIBLE_DEVICES=all
07/11/2022 8:49 PM UTC
sha256:3eb73064088b62826e9ea4b1bcbd9b10270f134e45f6436214db7c8ebed6052bCOPY
NGC-DL-CONTAINER-LICENSE /
07/11/2022 8:49 PM UTC
sha256:a3ed95caeb02ffe68cdd9fd84406680ae93d633cb16422d00e8a7c22955b46d4ENV
LD_LIBRARY_PATH=/usr/local/nvidia/lib:/usr/local/nvidia/lib64
07/11/2022 8:49 PM UTC
sha256:a3ed95caeb02ffe68cdd9fd84406680ae93d633cb16422d00e8a7c22955b46d4ENV
PATH=/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
07/11/2022 8:49 PM UTC
sha256:d6949fcf1aef0c0e95826220c5f2731c2909492c994d70707d8c93eb4c815b99RUN
TARGETARCH=amd64 echo "/usr/local/nvidia/lib" >> /etc/ld.so.conf.d/nvidia.conf &&
  echo "/usr/local/nvidia/lib64" >> /etc/ld.so.conf.d/nvidia.conf
07/11/2022 8:49 PM UTC
sha256:773163705c35e00e6c9cdb84e4e8db9079b8777f8f3f62839ec2008af668f939RUN
TARGETARCH=amd64 apt-get update &&
  apt-get install -y --no-install-recommends cuda-cudart-11-2=${NV_CUDA_CUDART_VERSION} ${NV_CUDA_COMPAT_PACKAGE} &&
  ln -s cuda-11.2 /usr/local/cuda &&
  rm -rf /var/lib/apt/lists/*
07/11/2022 8:49 PM UTC
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