2.parabricks能做什么？
germline, somatic, and RNA analysis.
hc-solution-overview-parabricks-2756341.pdf

3.参考手册
https://docs.nvidia.com/clara/parabricks/4.0.0/index.html
parabricks包括哪些软件
Parabricks 4.0.0-1 has a significantly reduced set of tools. We are focusing primarily on the following tools:
applybqsr、bam2fq、bammetrics、bamsort、bqsr、collectmultiplemetrics、dbsnp
、deepvariant、deepvariant_germline、fq2bam、genotypegvcf、germline、haplotypecaller
、indexgvcf、mutectcaller、postpon、prepon、rna_fq2bam、somatic、starfusion

parabricks支持wdl 和nextflow

https://github.com/clara-parabricks-workflows

4.软件安装要求
Any NVIDIA GPU that supports CUDA architecture 60, 70, 75, or 80 and has at least 16GB of GPU RAM. Parabricks has been tested on the following NVIDIA GPUs:
V100 T4
A10, A30, A40, A100, A6000

System Requirements:
A 2 GPU server should have at least 100GB CPU RAM and at least 24 CPU threads.
A 4 GPU server should have at least 196GB CPU RAM and at least 32 CPU threads.
A 8 GPU server should have at least 392GB CPU RAM and at least 48 CPU threads.

The following are software requirements for running Clara Parabricks.
An NVIDIA driver greater than version 465.32.* .
Any Linux Operating System that supports nvidia-docker2 Docker version 20.10 (or higher)

以前 nvidia支持docker的方式是对docker进行替换 现在统一使用nvidia-docker2
https://github.com/NVIDIA/nvidia-docker/issues/1268
What's the difference between the lastest nvidia-docker and nvidia container runtime？

使用如下操作 将parabricks添加到咱们自己的仓库 方便后续给客户安装
docker pull nvcr.io/nvidia/clara/clara-parabricks:4.0.0-1
docker tag nvcr.io/nvidia/clara/clara-parabricks:4.0.0-1 dockerhub.genostack.com:8090/nvidia/clara-parabricks:4.0.0-1
docker images
docker push dockerhub.genostack.com:8090/nvidia/clara-parabricks:4.0.0-1

使用下面的命令获取测试数据
$ wget -O parabricks_sample.tar.gz \
"https://s3.amazonaws.com/parabricks.sample/parabricks_sample.tar.gz"

docker run \
      --gpus all \
      --rm \
      --volume $(pwd):/workdir \
      --volume $(pwd):/outputdir \
    nvcr.io/nvidia/clara/clara-parabricks:4.0.0-1 \
    pbrun fq2bam \
      --ref /workdir/parabricks_sample/Ref/Homo_sapiens_assembly38.fasta \
      --in-fq /workdir/parabricks_sample/Data/sample_1.fq.gz /workdir/parabricks_sample/Data/sample_2.fq.gz \
      --out-bam /outputdir/fq2bam_output.bam