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[Singularity Hands-on] case3: Singularity でtensorflowを動かそう (--sandboxビルド, runコマンド編)

Last updated at Posted at 2018-01-21

case1では、ソースは "Docker HUb"を用い、実行は "run" コマンド でコンテナ内のtensorflowを実行します。また、本ページの親ページはこちらにあります。

Kobito.kgSxWp.png

前提条件

Singularity がインストールされていること

Hands-on1 で作成した local container から writableな sandboxのコンテナーを作成する

Singularity コンテナーの作成

command@host
CONTAINER_NAME="sbcontainer.img"
SOURCE_IMAGE="container.img"
command@host
sudo singularity build --sandbox ${CONTAINER_NAME} ${SOURCE_IMAGE}

生成物の確認

command@host
ls -l ${CONTAINER_NAME}
response@host
total 84
drwxr-xr-x  2 root root 4096 Dec  8 10:21 bin
drwxr-xr-x  2 root root 4096 Apr 12  2016 boot
drwxr-xr-x  2 root root 4096 Nov 14 13:48 dev
lrwxrwxrwx  1 root root   36 Oct 29 04:09 environment -> .singularity.d/env/90-environment.sh
drwxr-xr-x 51 root root 4096 Dec  8 10:21 etc
drwxr-xr-x  2 root root 4096 Apr 12  2016 home
drwxr-xr-x  8 root root 4096 Dec  8 10:21 lib
drwxr-xr-x  2 root root 4096 Nov 14 13:49 lib64
drwxr-xr-x  2 root root 4096 Nov 14 13:48 media
drwxr-xr-x  2 root root 4096 Nov 14 13:48 mnt
drwxr-xr-x  2 root root 4096 Dec  8 10:23 notebooks
drwxr-xr-x  2 root root 4096 Nov 14 13:48 opt
drwxr-xr-x  2 root root 4096 Apr 12  2016 proc
drwx------  4 root root 4096 Dec  8 10:23 root
drwxr-xr-x  5 root root 4096 Dec  8 10:21 run
-rwxr-xr-x  1 root root  733 Dec  8 10:20 run_jupyter.sh
drwxr-xr-x  2 root root 4096 Nov 17 21:59 sbin
lrwxrwxrwx  1 root root   24 Oct 29 04:09 singularity -> .singularity.d/runscript
drwxr-xr-x  2 root root 4096 Nov 14 13:48 srv
drwxr-xr-x  2 root root 4096 Feb  5  2016 sys
drwxrwxr-x  3 root root 4096 Dec  8 10:22 tmp
drwxr-xr-x 10 root root 4096 Nov 14 13:48 usr
drwxr-xr-x 11 root root 4096 Nov 14 13:49 var

コンテナーの ubuntu を update する

コンテナーへのログイン(書き込みモード)

command@host
sudo singularity shell --writable ${CONTAINER_NAME}

コンテナー内のパッケージをアップデート

command@container
apt-get update
apt-get install wget

MNISTのダウンロード

MNISTをダウンロードします.

command@container
cd /
wget https://raw.githubusercontent.com/tensorflow/tensorflow/r1.4/tensorflow/examples/tutorials/mnist/mnist_softmax.py
command@container
exit

Tensorflowの実行 (runコマンド経由)

inspectコマンドによるランスクリプトの確認

inspect コマンドを使って、コンテナーのランスクリプトの内容を確認します。

command@host
singularity inspect -r ${CONTAINER_NAME}
response@host
#!/bin/sh

exec "/run_jupyter.sh" "--allow-root"

現状だとjupyterが立ち上がるようです。

ランスクリプトの編集

このランスクリプトを編集します。

command@host
sudo vi ${CONTAINER_NAME}/.singularity.d/runscript

内容は以下のようにします。

編集内容
#!/bin/sh

#exec "/run_jupyter.sh" "--allow-root"
exec python /mnist_softmax.py

MNIST on tensorflow の実行

ランスクリプトを実行します。下記の例のように最後に "0.9197" のような数字がでれば完成です。

command@host
singularity run ${CONTAINER_NAME}
response@host
Extracting /tmp/tensorflow/mnist/input_data/train-images-idx3-ubyte.gz
Extracting /tmp/tensorflow/mnist/input_data/train-labels-idx1-ubyte.gz
Extracting /tmp/tensorflow/mnist/input_data/t10k-images-idx3-ubyte.gz
Extracting /tmp/tensorflow/mnist/input_data/t10k-labels-idx1-ubyte.gz
2018-01-21 06:39:08.614155: I tensorflow/core/platform/cpu_feature_guard.cc:137] Your CPU supports instructions that this TensorFlow binary was not compiled to use: SSE4.1 SSE4.2 AVX AVX2
0.9197
0

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