在其他平台上遭遇的問題
===
###### tags: `Parabricks-v3.5`
###### tags: `基因體`, `NVIDIA`, `Clara`, `Parabricks`, `二級分析`, `Azure`

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[TOC]

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## [TWCC](https://www.twcc.ai/)
### 開發型容器 (#singularity)
- 不能在容器裡安裝 docker,
- 安裝 singularity
- [[sylabs.io][Singularity container]<br>Install the Debian/Ubuntu package using apt](https://sylabs.io/guides/3.0/user-guide/installation.html#install-the-debian-ubuntu-package-using-apt)
- apt 安裝的版本不到 3.0
- parabricks 至少要 3.0 以上
- [[github] singularity](https://github.com/sylabs/singularity/)
- [INSTALL.md](https://github.com/sylabs/singularity/blob/master/INSTALL.md)

            sudo apt install -y git

剩餘文件中的步驟
最後還是 fail
[](https://i.imgur.com/Et29bfx.png)
- [Parabricks: INSTALLING WITH SINGULARITY 3.0 OR HIGHER](https://docs.nvidia.com/clara/parabricks/v3.5/text/getting_started.html#installing-with-singularity-3-0-or-higher)

        $ sudo ./parabricks/installer.py \
            --install-location localdir \
            --container singularity

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### 虛擬運算(VCS)
- 沒有 GPU 資源

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### HPC 高速運算任務 (#singularity)
- 使用 singularity 而不使用 docker
- 沒有 root 權限

    $ sudo ./parabricks/installer.py --install-location localdir --container singularity

    Sorry, user tjtsai29863 is not allowed to execute './parabricks/installer.py --install-location localdir --container singularity' as root on ln01-twnia2.twcc.ai.

- 必須是 root

    $ ./parabricks/installer.py --install-location localdir --container singularity
    ...
    ---1---
    Checking curl installation

    Checking singularity installation

    ---2---
    ---3---
    ---4---
    ---5---
    FATAL:   You must be the root user, however you can use --remote or --fakeroot to build from a Singularity recipe file
    Could not create singularity image
    Contact [e-mail] for troubleshooting
    Documentation can be found at https://docs.nvidia.com/clara/#parabricks

- however you can use `--remote` or `--fakeroot` to build from a Singularity recipe file
- `--enable-fakeroot`

    $ ./parabricks/installer.py --install-location localdir --container singularity --enable-fakeroot
    ...
    ---1---
    Checking curl installation

    Checking singularity installation

    ---2---
    ---3---
    ---4---
    ---5---
    FATAL:   could not use fakeroot: no mapping entry found in /etc/subuid for tjtsai29863
    Could not create singularity image
    Contact [e-mail] for troubleshooting
    Documentation can be found at https://docs.nvidia.com/clara/#parabricks

- singularity config fakeroot

    $ singularity config fakeroot --add tjtsai29863
    FATAL:   "singularity config fakeroot" command requires root privileges

- [[singularity] Fakeroot feature](https://sylabs.io/guides/3.5/user-guide/fakeroot.html)