[be1279]: / internal / scripts / run_dev.sh

Download this file

61 lines (52 with data), 2.0 kB

 1
 2
 3
 4
 5
 6
 7
 8
 9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
#!/usr/bin/env bash
set -euo pipefail
source .env
LOCAL_REPO_PATH="$(realpath $(pwd))"
if [[ "$(basename ${LOCAL_REPO_PATH})" != "bionemo-framework" ]]; then
echo "ERROR: must run this script from the bionemo repository root!"
exit 1
fi
COMMIT=$(git rev-parse HEAD)
DOCKER_REPO_PATH="/workspace/bionemo2"
DOCKER_VERSION=$(docker version | grep -i version | head -1 | awk '{print $2}')
DOCKER_VERSION_WITH_GPU_SUPPORT='19.03.0'
if [ "$DOCKER_VERSION_WITH_GPU_SUPPORT" == "$(echo -e "$DOCKER_VERSION\n$DOCKER_VERSION_WITH_GPU_SUPPORT" | sort -V | head -1)" ]; then
PARAM_RUNTIME="--gpus all"
else
PARAM_RUNTIME="--runtime=nvidia"
fi
echo "docker run ... nvcr.io/nvidian/cvai_bnmo_trng/bionemo:dev-bionemo2-${COMMIT} bash"
echo '---------------------------------------------------------------------------------------------'
# DO NOT set -x: we **DO NOT** want to leak credentials to STDOUT! (API_KEY)
docker run \
--rm \
-it \
--network host \
${PARAM_RUNTIME} \
-p ${JUPYTER_PORT}:8888 \
--shm-size=4g \
-e TMPDIR=/tmp/ \
-e NUMBA_CACHE_DIR=/tmp/ \
-e WANDB_API_KEY=$WANDB_API_KEY \
-e NGC_CLI_API_KEY=$NGC_CLI_API_KEY \
-e NGC_CLI_ORG=$NGC_CLI_ORG \
-e NGC_CLI_TEAM=$NGC_CLI_TEAM \
-e NGC_CLI_FORMAT_TYPE=$NGC_CLI_FORMAT_TYPE \
-e AWS_ENDPOINT_URL \
-e AWS_REGION \
-e AWS_SECRET_ACCESS_KEY \
-e AWS_ACCESS_KEY_ID \
-e HOME=${DOCKER_REPO_PATH} \
-w ${DOCKER_REPO_PATH} \
-v ${LOCAL_RESULTS_PATH}:${DOCKER_RESULTS_PATH} \
-v ${LOCAL_DATA_PATH}:${DOCKER_DATA_PATH} \
-v ${LOCAL_MODELS_PATH}:${DOCKER_MODELS_PATH} \
-v /etc/passwd:/etc/passwd:ro \
-v /etc/group:/etc/group:ro \
-v /etc/shadow:/etc/shadow:ro \
-v ${HOME}/.ssh:${DOCKER_REPO_PATH}/.ssh:ro \
-v ${LOCAL_REPO_PATH}/htmlcov:/${DOCKER_REPO_PATH}/htmlcov \
-u $(id -u):$(id -g) \
-v ${LOCAL_REPO_PATH}:${DOCKER_REPO_PATH} \
"nvcr.io/nvidian/cvai_bnmo_trng/bionemo:dev-bionemo2-${COMMIT}" \
bash