John Chilton 413f476520 Implement singularity support. ...

See http://singularity.lbl.gov/ for more information on Singularity and see job_conf.xml.sample_advanced for information on setting up job runners to exploit singularity.

The biggest current caveat is probably that currently these container images need to be setup manually by the admin and the paths hard-coded for each tool in job_conf.xml. There are people who do such manual setups for Docker (https://github.com/phnmnl/container-galaxy-k8s-runtime/blob/develop/config/job_conf.xml) - so it wouldn't be surprising if someone wanted to set this up for singularity as well. That said I'm sure this will be followed up by magic to fetch and convert Docker containers and leverage published singularity containers (such as mulled can now produce (https://github.com/galaxyproject/galaxy-lib/pull/64).

2017-06-09 16:55:03 -04:00

..

plugins

Merge remote-tracking branch 'upstream/release_17.05' into dev

2017-06-06 15:52:49 -04:00

auth_conf.xml.sample

Fixes to LDAP auth config sample.

2015-09-04 16:31:07 +01:00

build_sites.yml.sample

Pull build_sites out of datatypes conf.

2017-01-30 20:43:29 -05:00

containers_conf.yml.sample

Add an ignore_volumes option for swarm_mode containers

2017-04-17 16:54:54 -04:00

data_manager_conf.xml.sample

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

datatypes_conf.xml.sample

Fix the Smat sniffer

2017-06-05 10:00:49 -04:00

dependency_resolvers_conf.xml.sample

Prefer versioned Conda dependencies to unversioned Galaxy ones.

2017-03-03 12:54:59 -05:00

disposable_email_blacklist.conf.sample

initial commit of email activation feature

2013-09-19 16:38:12 -04:00

external_service_types_conf.xml.sample

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

galaxy.ini.sample

Fix older GIE config sample description.

2017-06-07 10:46:39 -04:00

job_conf.xml.sample_advanced

Implement singularity support.

2017-06-09 16:55:03 -04:00

job_conf.xml.sample_basic

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

job_metrics_conf.xml.sample

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

job_resource_params_conf.xml.sample

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

local_conda_mapping.yml.sample

Samples and defaults for Conda mapping.

2017-01-23 09:47:18 -05:00

migrated_tools_conf.xml.sample

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

object_store_conf.xml.sample

more consistent naming.

2016-07-21 13:25:53 -04:00

openid_conf.xml.sample

move genomespace as the first shown provider in selection

2017-04-21 13:53:50 -04:00

reports.ini.sample

Synchronize and update documentation for reports and shed.

2016-08-23 09:43:31 -04:00

shed_data_manager_conf.xml.sample

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

shed_tool_conf.xml.sample

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

shed_tool_data_table_conf.xml.sample

Move samples configs to config subdirectory.

2014-09-15 11:28:18 -04:00

swarm_manager_conf.yml.sample

GIE container waiting and swarm management.

2017-03-13 21:31:55 -04:00

tool_conf.xml.main

Hide tools that have been replaced.

2016-03-02 11:41:20 -05:00

tool_conf.xml.sample

Implement collection operation for filtering lists from a file.

2017-04-17 17:08:25 -04:00

tool_data_table_conf.xml.sample

Include all three BLAST .loc files in data table conf

2016-11-04 17:00:13 +00:00

tool_destinations.yml.sample

update the documentation

2017-02-28 16:29:01 +01:00

tool_shed.ini.sample

Synchronize and update documentation for reports and shed.

2016-08-23 09:43:31 -04:00

tool_sheds_conf.xml.sample

comment out connection to TTS in sample config

2015-03-24 16:08:21 -04:00

workflow_schedulers_conf.xml.sample

Implement workflow scheduling 'plugin' framework.

2014-11-13 13:47:38 -05:00