Commit 5c687f69 authored by Antony Le Béchec's avatar Antony Le Béchec

V20210107

parent b0303f73
......@@ -59,6 +59,8 @@ services:
- DEJAVU_FOLDER=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_DEJAVU_FOLDER}
- REPO_FOLDER=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_REPO_FOLDER}
- SAMPLE_EXCLUDE_FILE=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_SAMPLE_EXCLUDE_FILE}
- GROUP_PROJECT_LIST_FILE=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_GROUP_PROJECT_LIST_FILE}
- GROUP_PROJECT_FILTER_FILE=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_GROUP_PROJECT_FILTER_FILE}
volumes:
# Main configuration
- ${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_HOST_FOLDER_CONFIG}:${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_INNER_FOLDER_CONFIG}:ro
......@@ -69,6 +71,8 @@ services:
# Repository folders
- ${DOCKER_STARK_MAIN_FOLDER}/${DOCKER_STARK_FOLDER_OUTPUT_ARCHIVES}:${DOCKER_STARK_INNER_FOLDER_OUTPUT_ARCHIVES}:ro
- ${DOCKER_STARK_MAIN_FOLDER}/${DOCKER_STARK_FOLDER_OUTPUT_REPOSITORY}:${DOCKER_STARK_INNER_FOLDER_OUTPUT_REPOSITORY}:ro
# DEV
- /Users/lebechea/BIOINFO/git/STARK-modules/services/databases/dejavu/setup/dockerfile/scripts/dejavu.generate.dev.sh:/tool/toolbox/dejavu.generate.sh:ro
networks:
- stark_stark
......
......@@ -105,7 +105,7 @@ DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_IMAGE=${DOCKER_STARK_MODULE_SUBMO
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_CONTAINER_NAME=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_IMAGE_NAME}
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_CONTAINER_ENTRYPOINT=/bin/bash
#DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_CONTAINER_COMMAND='-c "while true; do /tool/toolbox/dejavu.generate.sh --application=$APPLICATION --repo_folder=$REPO_FOLDER --dejavu_folder=$DEJAVU_FOLDER --sample_exclude_file=$SAMPLE_EXCLUDE_FILE --verbose; sleep $SLEEP; done"'
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_CONTAINER_COMMAND='-c "source /tool/config/config.app && source $APPLICATION && while true; do /tool/toolbox/dejavu.generate.sh --application=$APPLICATION --repo_folder=$REPO_FOLDER --dejavu_folder=$DEJAVU_FOLDER --sample_exclude_file=$SAMPLE_EXCLUDE_FILE --verbose; sleep $SLEEP; done"'
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_CONTAINER_COMMAND='-c "source /tool/config/config.app && source $APPLICATION && while true; do /tool/toolbox/dejavu.generate.sh --application=$APPLICATION --repo_folder=$REPO_FOLDER --dejavu_folder=$DEJAVU_FOLDER --sample_exclude_file=$SAMPLE_EXCLUDE_FILE --group_project_list_file=$GROUP_PROJECT_LIST_FILE --group_project_filter_file=$GROUP_PROJECT_FILTER_FILE --verbose; source $APPLICATION && sleep $SLEEP; done"'
#DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_CONTAINER_COMMAND='-c "while true; do sleep $SLEEP; done"'
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_CONTAINER_RESTART=always
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_CONTAINER_ENV_FILE=./${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_NAME}/STARK.env
......@@ -142,6 +142,13 @@ DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_REPO_FOLDER=${DOCKER_STARK_
# sample_exclude_file
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_SAMPLE_EXCLUDE_FILE=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_INNER_FOLDER_CONFIG}/sample_exclude.conf
# group_project_list_file
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_GROUP_PROJECT_LIST_FILE=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_INNER_FOLDER_CONFIG}/group_project_list.conf
# group_project_filter_file
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_GROUP_PROJECT_FILTER_FILE=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_INNER_FOLDER_CONFIG}/group_project_filter.conf
# Configuration APP
DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_PARAM_APPLICATION=${DOCKER_STARK_MODULE_SUBMODULE_SERVICE_LISTENER_INNER_FOLDER_CONFIG}/dejavu.app
......
# Include only group/project list";
# Format: '<group>/<project>[,<group>/<project>]'
# Example: 'GENOME/GERMLINE' to include only run from group GENOME and project GERMLINE
# Default: '' (empty)";
\ No newline at end of file
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