pancancer-bag: 1.0.1-alpha.0
- 1. OICR
- 2. Ontario Institute for Cancer Research
- 3. OICR & Nimbus Informatics, LLC
Description
This was sufficient to get a DEWrapper worker for 1.0.2 Tested interactively by logging in and kicking off a DEWrapper workflow (up to EMBL)
Ansible Playbook still fails due to issue with run_worker_daemon.sh
Variables.json used for youxia-deployer test was as follows
{"aws_zone":"nil","aws_ssh_key_name":"FOOBAR","aws_secret_key":"FOOBAR","box_url":"https://github.com/mitchellh/vagrant-aws/raw/master/dummy.box","seqware_version":"1.1.0","platform":"aws","seqware_provider":"artifactory","aws_instance_type":"m1.xlarge","workflow_name":"DEWrapper","bwa_workflow_version":"2.6.3","ansible_playbook":"../pancancer-bag/pancancer.yml","seqware_in_container":"true","number_of_clusters":"1","host_inventory_file_path":"ansible_host_inventory.ini","aws_image":"ami-a73264ce","aws_ssh_pem_file":"/home/ubuntu/.ssh/sshorser-2.pem","gluster_device_whitelist":"--whitelist b","gluster_directory_path":"","aws_region":"us-east-1","workflows":["Workflow_Bundle_DEWrapperWorkflow_1.0.2_SeqWare_1.1.0","Workflow_Bundle_HelloWorld_1.0-SNAPSHOT_SeqWare_1.1.0"],"aws_key":"FOOBAR","aws_ebs_vols":"aws.block_device_mapping = [{ 'DeviceName' => '/dev/sda1', 'Ebs.VolumeSize' => 1000 },{'DeviceName' => '/dev/sdb', 'NoDevice' => '' }]","aws_ssh_username":"ubuntu","install_workflow":"true","test_workflow":"true","number_of_single_node_clusters":"1","box":"dummy","queueHost":"10.90.157.104","queueName":"pancancer_arch_3","lvm_device_whitelist" : "/dev/xvdb,/dev/xvdc,/dev/xvdd,/dev/xvde","single_node": true, "single_node_lvm" : true}
Files
pancancer-bag-1.0.1-alpha.0.zip
Files
(42.7 kB)
Name | Size | Download all |
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md5:b82bf241c00f3f918ac06602f8d3f5d0
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42.7 kB | Preview Download |
Additional details
Related works
- Is supplement to
- https://github.com/ICGC-TCGA-PanCancer/pancancer-bag/tree/1.0.1-alpha.0 (URL)