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Update, this is the current working implementation that supports consonance-wes. #1

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Update, this is the current working implementation that supports consonance-wes. #1

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895df7f
Commented out a aws-creds removal. Need them for uploading files back…
achave11-ucsc Apr 16, 2018
29f0649
Fixing outdate python issue
achave11-ucsc Apr 17, 2018
8a1b8be
Updating python2
achave11-ucsc Apr 17, 2018
b1689bb
Fixing provisioning issues with container-host-bag for consonance.
achave11-ucsc Apr 19, 2018
ea4d45b
Changed pip2.7 to pip executable. Install pip method changed.
achave11-ucsc Apr 19, 2018
993528a
reverted to old method of installing pip.
achave11-ucsc Apr 19, 2018
ba747c6
Adding methods for consistent downloading and running files from python.
achave11-ucsc Apr 19, 2018
1376fc6
Quick fix
achave11-ucsc Apr 19, 2018
af99a06
Quick fix
achave11-ucsc Apr 19, 2018
e8ec1e7
sudo apt-get update for 'Quick update'
achave11-ucsc Apr 19, 2018
8345ce6
Reverting to install of pip that gets further along the provisioning
achave11-ucsc Apr 20, 2018
6f55873
Including python-dev
achave11-ucsc Apr 20, 2018
f9508bb
Hot fix. flag for install pre-requisites.
achave11-ucsc Apr 20, 2018
9285be8
Adding :worker to consonance install. Hoping it copies credential over,
achave11-ucsc Apr 20, 2018
9ab587d
Changes paths for copying over credentials.
achave11-ucsc Apr 20, 2018
88e7305
Changes paths for copying over credentials in destination.
achave11-ucsc Apr 22, 2018
cf24f2d
Removed error logs! Provisioning creds., correctly.
achave11-ucsc Apr 22, 2018
bd76524
Updated consonance-arch.jar file. Synchronized with consonance-main.
achave11-ucsc Apr 22, 2018
59d12a0
Hot fix, to url for arch-file!
achave11-ucsc Apr 22, 2018
6c50a68
Synchronized java versions. Made a circuit less test. Working
achave11-ucsc Apr 22, 2018
94598e1
Hot fix!
achave11-ucsc Apr 22, 2018
c8f8fcb
Update download jar-file method.
achave11-ucsc Apr 22, 2018
ec3c446
Set consonance host to master and not master:worker
achave11-ucsc Apr 22, 2018
7043cbd
Tracing logs, det diffs.
achave11-ucsc Apr 23, 2018
9a451a4
Reverted jar, trying with dockstore credentials.
achave11-ucsc Apr 23, 2018
d7b4bbc
Detting up dockstore directory.
achave11-ucsc Apr 23, 2018
ca3b9f9
Update permissions for req. Installs.
achave11-ucsc Apr 26, 2018
4348b82
Update permissions for requirements. Changing/duplicating file locati…
achave11-ucsc Apr 26, 2018
7a94bd4
Hot fix.
achave11-ucsc Apr 26, 2018
7769b95
Updated cwltool version to one compatible with dockstore.
achave11-ucsc May 17, 2018
8db3a2d
Updated schema-salad version to one compatible with dockstore.
achave11-ucsc May 17, 2018
85001b9
Updated schema-salad version to one compatible with dockstore.
achave11-ucsc May 17, 2018
42bb44e
Trying cwltool install with dependencies via pip install.
achave11-ucsc May 17, 2018
a8f4231
Adding additional dependencies.
achave11-ucsc May 17, 2018
6dfc82d
Adding update ubuntu system call.
achave11-ucsc May 17, 2018
681cedb
Hot fix, added sudo to update command.
achave11-ucsc May 17, 2018
ab45529
Diff pip install call.
achave11-ucsc May 17, 2018
91c5a08
Update cwltool, and remove patched files. They are no longer required.
achave11-ucsc Jun 23, 2018
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Updated schema-salad version to one compatible with dockstore.
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@achave11-ucsc
achave11-ucsc committed May 17, 2018
commit 85001b95d406d80a23602dc1f828d7ac25bc578a
1 change: 0 additions & 1 deletion roles/consonance/tasks/main.yml
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Original file line number Diff line number Diff line change
@@ -64,7 +64,6 @@

- name: Install schema-salad
pip: name=schema-salad executable=pip2 version=2.6.20170806163416
pip: name=schema-salad executable=pip2 version=2.6.20170806163416

- name: Install cwltool
pip: name=cwltool executable=pip2 version=1.0.20170828135420