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sido committed 2018-02-28 19:16:49 +01:00
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.gitignore
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molgenis-ops-rancher.iml
.idea
README.md
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templates/molgenis/0/README.md
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# MOLGENIS
### Flexible software for scientific data
#### Process, manage, query, annotate, integrate, analyse, share
This template creates a MOLGENIS stack on top of Rancher. It creates 3 docker services:
- MOLGENIS instance
- Postgress instance
- ElasticSearch instance
## Usage:
- Select MOLGENIS from catalog
- Enter the name of the replica set
- Click deploy
MOLGENIS can now be accessed over the Rancher network.
templates/molgenis/0/docker-compose.yml
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app:
image: sidohaakma/molgenis-docker:2.0.0
ports:
- 8081:8080
links:
- db
volumes:
- app-data:/opt/molgenis
labels:
io.rancher.container.create_agent: 'true'
io.rancher.scheduler.global: 'true'
db:
build: ./db
expose:
- 5432
volumes:
- db-data:/var/lib/postgresql/data
labels:
io.rancher.container.create_agent: 'true'
volumes:
db-data:
app-data:
templates/molgenis/0/rancher-compose.yml
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.catalog:
name: molgenis
version: v2.0.0
description: Molgenis
minimum_rancher_version: v1.6.3
templates/molgenis/1/README.md
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# MOLGENIS
**Flexible software for scientific data**
This template creates a MOLGENIS stack on top of Rancher. It creates 3 docker services:
- MOLGENIS
- Elasticsearch is packaged with MOLGENIS
- Postgress
**Usage:**
- Select MOLGENIS from catalog
- The stack-name must not be altered (this is hardcoded in de docker-compose file)
- Click *Launch*
MOLGENIS can now be accessed over the Rancher network.
templates/molgenis/1/docker-compose.yml
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app:
image: sidohaakma/molgenis-docker:4.1.0
ports:
- 8081:8080
links:
- db
volumes_from:
- molgenis-data
labels:
io.rancher.sidekicks: molgenis-data
io.rancher.scheduler.global: true
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
db:
image: postgres:9.6-alpine
environment:
- POSTGRES_USER=molgenis
- POSTGRES_PASSWORD=molgenis
- POSTGRES_DB=molgenis
expose:
- 5432
volumes_from:
- postgres-data
labels:
io.rancher.sidekicks: postgres-data
io.rancher.scheduler.global: true
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
postgres-data:
image: busybox
labels:
io.rancher.container.start_once: true
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
volumes:
- /var/lib/postgresql/data/pgdata
molgenis-data:
image: busybox
labels:
io.rancher.container.start_once: true
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
volumes:
- /opt/molgenis
templates/molgenis/1/rancher-compose.yml
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.catalog:
name: molgenis
version: v4.1.0
description: Molgenis
minimum_rancher_version: v1.6.3
templates/molgenis/2/README.md
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# MOLGENIS
**Flexible software for scientific data**
This template creates a MOLGENIS stack on top of Rancher. It creates 3 docker services:
- MOLGENIS
- Postgress
- ElasticSearch
**Usage:**
- Select MOLGENIS from catalog
- The stack-name must not be altered (this is hardcoded in de docker-compose file)
- Click *Launch*
MOLGENIS can now be accessed over the Rancher network.
templates/molgenis/2/docker-compose.yml
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molgenis:
image: sidohaakma/molgenis-docker:5.2.0
ports:
- 8081:8080
links:
- postgres
- elasticsearch
volumes_from:
- molgenis-data
labels:
io.rancher.sidekicks: molgenis-data
io.rancher.scheduler.global: true
io.rancher.container.pull_image: always
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
postgres:
image: postgres:9.6-alpine
environment:
- POSTGRES_USER=molgenis
- POSTGRES_PASSWORD=molgenis
- POSTGRES_DB=molgenis
- PGDATA=/var/lib/postgresql/data/pgdata
volumes_from:
- postgres-data
ports:
- 5432
labels:
io.rancher.sidekicks: postgres-data
io.rancher.scheduler.global: true
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
elasticsearch:
image: docker.elastic.co/elasticsearch/elasticsearch:5.5.1
environment:
- "cluster.name=molgenis"
- "bootstrap.memory_lock=true"
- "ES_JAVA_OPTS=-Xms512m -Xmx512m"
- "xpack.security.enabled=false"
ulimits:
memlock:
soft: -1
hard: -1
# volumes_from:
# - elasticsearch-data
ports:
- 9200:9200
- 9300:9300
labels:
#io.rancher.sidekicks: elasticsearch-data
io.rancher.scheduler.global: true
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
# loadbalancer:
# image: rancher/lb-service-haproxy:v0.7.5
# ports:
# - 80
# labels:
# io.rancher.scheduler.global: true
# io.rancher.scheduler.affinity:host_label: type=molgenis
# io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
postgres-data:
image: busybox
labels:
io.rancher.container.start_once: true
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
volumes:
- /var/lib/postgresql/data/pgdata
molgenis-data:
image: busybox
labels:
io.rancher.container.start_once: true
io.rancher.scheduler.affinity:host_label: type=molgenis
io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
volumes:
- /opt/molgenis
# elasticsearch-data:
# image: busybox
# labels:
# io.rancher.container.start_once: true
# io.rancher.scheduler.affinity:host_label: type=molgenis
# io.rancher.scheduler.affinity:container_label: io.rancher.stack.name=molgenis
# volumes:
# - /usr/share/elasticsearch/data
templates/molgenis/2/rancher-compose.yml
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.catalog:
name: molgenis
version: v5.0.0
description: Molgenis
minimum_rancher_version: v1.6.3
#loadbalancer:
# scale: 1
# lb_config:
# port_rules:
# - source_port: 80
# target_port: 8081
# service: molgenis
# health_check:
# port: 42
# interval: 2000
# unhealthy_threshold: 3
# healthy_threshold: 2
# response_timeout: 2000
templates/molgenis/catalogIcon-molgenis.svg
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templates/molgenis/config.yml
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name: Molgenis
description: |
Molgenis | Flexible software for scientific data
version: v5.0.0
category: All
maintainer: Molgenis DEV-team and community-members
projectURL: http://molgenis.org