arvados.git
6 years agoMerge branch '12100-cwltool-update' closes #12100
Peter Amstutz [Fri, 11 Aug 2017 15:10:11 +0000 (11:10 -0400)]
Merge branch '12100-cwltool-update' closes #12100

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12100: Bump cwltool for v1.0.2 secondaryFile handling.
Peter Amstutz [Wed, 9 Aug 2017 20:30:19 +0000 (16:30 -0400)]
12100: Bump cwltool for v1.0.2 secondaryFile handling.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11167: Fixed workbench package building scripts.
Lucas Di Pentima [Thu, 10 Aug 2017 19:03:37 +0000 (16:03 -0300)]
11167: Fixed workbench package building scripts.
Refs #11167

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years agoMerge branch '11167-wb-remove-arvget'
Lucas Di Pentima [Thu, 10 Aug 2017 13:27:49 +0000 (10:27 -0300)]
Merge branch '11167-wb-remove-arvget'
Closes #11167

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Revert removing ActionController::Live from collections controller
Lucas Di Pentima [Thu, 10 Aug 2017 11:49:09 +0000 (08:49 -0300)]
11167: Revert removing ActionController::Live from collections controller

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Removing unnecessary ActionController::Live from collections controller.
Lucas Di Pentima [Wed, 9 Aug 2017 23:52:47 +0000 (20:52 -0300)]
11167: Removing unnecessary ActionController::Live from collections controller.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Merge branch 'master' into 11167-wb-remove-arvget
Lucas Di Pentima [Wed, 9 Aug 2017 23:49:39 +0000 (20:49 -0300)]
11167: Merge branch 'master' into 11167-wb-remove-arvget

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years agoMerge branch '11925-nodemanager-watchdog-test' refs #11925
Peter Amstutz [Wed, 9 Aug 2017 19:11:35 +0000 (15:11 -0400)]
Merge branch '11925-nodemanager-watchdog-test' refs #11925

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years agoMerge branch '12093-cwl-project-uuid' closes #12093
Peter Amstutz [Wed, 9 Aug 2017 18:38:14 +0000 (14:38 -0400)]
Merge branch '12093-cwl-project-uuid' closes #12093

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago12093: Propagate --project-uuid to runner job inside container.
Peter Amstutz [Wed, 9 Aug 2017 18:09:33 +0000 (14:09 -0400)]
12093: Propagate --project-uuid to runner job inside container.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years agoMerge branch '12087-ws-busy-loop'
Tom Clegg [Wed, 9 Aug 2017 13:40:53 +0000 (09:40 -0400)]
Merge branch '12087-ws-busy-loop'

closes #12087

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11167: Added visual studio code control dir to gitignore
Lucas Di Pentima [Wed, 9 Aug 2017 13:30:19 +0000 (10:30 -0300)]
11167: Added visual studio code control dir to gitignore

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Removed unnecessary conditional
Lucas Di Pentima [Tue, 8 Aug 2017 20:26:35 +0000 (17:26 -0300)]
11167: Removed unnecessary conditional

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Fixed integration test by replacing the use of PhantomJS with
Lucas Di Pentima [Tue, 8 Aug 2017 19:53:32 +0000 (16:53 -0300)]
11167: Fixed integration test by replacing the use of PhantomJS with
Selenium, as the former wasn't returning all the expected response
headers.
Also, fixed the Range header used when asking for a partial log.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago12087: Exit "wait for low water mark" loop if session terminates.
Tom Clegg [Tue, 8 Aug 2017 17:04:17 +0000 (13:04 -0400)]
12087: Exit "wait for low water mark" loop if session terminates.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12087: Remove useless continue statement.
Tom Clegg [Tue, 8 Aug 2017 17:04:05 +0000 (13:04 -0400)]
12087: Remove useless continue statement.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12087: Don't report read/write errors on terminated sessions.
Tom Clegg [Tue, 8 Aug 2017 17:03:20 +0000 (13:03 -0400)]
12087: Don't report read/write errors on terminated sessions.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12087: Fixup some problems found by go vet.
Tom Clegg [Tue, 8 Aug 2017 16:26:06 +0000 (12:26 -0400)]
12087: Fixup some problems found by go vet.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12087: Fix up context cancel usage.
Tom Clegg [Tue, 8 Aug 2017 16:10:33 +0000 (12:10 -0400)]
12087: Fix up context cancel usage.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11167: Merge branch 'master' into 11167-wb-remove-arvget
Lucas Di Pentima [Mon, 7 Aug 2017 21:55:59 +0000 (18:55 -0300)]
11167: Merge branch 'master' into 11167-wb-remove-arvget

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Refactored tests to use new helper function.
Lucas Di Pentima [Mon, 7 Aug 2017 21:52:47 +0000 (18:52 -0300)]
11167: Refactored tests to use new helper function.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Added response header whitelisting needed when using CORS
Lucas Di Pentima [Mon, 7 Aug 2017 21:44:17 +0000 (18:44 -0300)]
11167: Added response header whitelisting needed when using CORS
request to fetch partial content.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Documented default keep_web_url setting on workbench config file.
Lucas Di Pentima [Mon, 7 Aug 2017 21:36:12 +0000 (18:36 -0300)]
11167: Documented default keep_web_url setting on workbench config file.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Added helper function to be used on collection access tests via keep-web
Lucas Di Pentima [Mon, 7 Aug 2017 21:34:15 +0000 (18:34 -0300)]
11167: Added helper function to be used on collection access tests via keep-web

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Removed conditional code
Lucas Di Pentima [Mon, 7 Aug 2017 21:02:52 +0000 (18:02 -0300)]
11167: Removed conditional code

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years agoMerge branch '12027-slurm-error-text'
Tom Clegg [Mon, 7 Aug 2017 17:47:34 +0000 (13:47 -0400)]
Merge branch '12027-slurm-error-text'

refs #12027

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12027: Recognize a new "node failed" error message.
Tom Clegg [Mon, 7 Aug 2017 13:58:04 +0000 (09:58 -0400)]
12027: Recognize a new "node failed" error message.

"srun: error: Cannot communicate with node 0.  Aborting job."

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years agoMerge branch '12078-perl-bool-params'
Tom Clegg [Fri, 4 Aug 2017 18:42:51 +0000 (14:42 -0400)]
Merge branch '12078-perl-bool-params'

refs #12078

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12078: Fix crash encoding booleans with libjson-perl 2.90.
Tom Clegg [Fri, 4 Aug 2017 18:30:08 +0000 (14:30 -0400)]
12078: Fix crash encoding booleans with libjson-perl 2.90.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11925: Two more tests wait for expected number of paired nodes.
Peter Amstutz [Thu, 3 Aug 2017 21:01:01 +0000 (17:01 -0400)]
11925: Two more tests wait for expected number of paired nodes.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11925: More tests wait for expected number of paired nodes.
Peter Amstutz [Thu, 3 Aug 2017 20:45:35 +0000 (16:45 -0400)]
11925: More tests wait for expected number of paired nodes.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11925: Add check for paired nodes, not just monitored nodes.
Peter Amstutz [Thu, 3 Aug 2017 20:29:50 +0000 (16:29 -0400)]
11925: Add check for paired nodes, not just monitored nodes.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago12024: Update help message.
Tom Clegg [Thu, 3 Aug 2017 19:54:54 +0000 (15:54 -0400)]
12024: Update help message.

refs #12024

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12024: Use vendor bundle when building Go packages.
Tom Clegg [Thu, 3 Aug 2017 19:07:48 +0000 (15:07 -0400)]
12024: Use vendor bundle when building Go packages.

refs #12024

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11925: Explicitly join actor thread after stopping.
Peter Amstutz [Thu, 3 Aug 2017 18:57:41 +0000 (14:57 -0400)]
11925: Explicitly join actor thread after stopping.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11925: Tweak test_node_pairing
Peter Amstutz [Thu, 3 Aug 2017 17:24:50 +0000 (13:24 -0400)]
11925: Tweak test_node_pairing

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11925: Make unit tests more reliable.
Peter Amstutz [Thu, 3 Aug 2017 17:02:26 +0000 (13:02 -0400)]
11925: Make unit tests more reliable.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years agoMerge branch '12024-vendor-bundle-version'
Tom Clegg [Thu, 3 Aug 2017 15:00:34 +0000 (11:00 -0400)]
Merge branch '12024-vendor-bundle-version'

refs #12024

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12024: Fix checksums in vendor.json.
Tom Clegg [Thu, 3 Aug 2017 14:56:57 +0000 (10:56 -0400)]
12024: Fix checksums in vendor.json.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years agoMerge branch '12057-nodemanager-priority' closes #12057
Peter Amstutz [Wed, 2 Aug 2017 19:38:03 +0000 (15:38 -0400)]
Merge branch '12057-nodemanager-priority' closes #12057

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11925: Update dependency on arvados-python-client to fix
Peter Amstutz [Wed, 2 Aug 2017 18:26:24 +0000 (14:26 -0400)]
11925: Update dependency on arvados-python-client to fix
test_unsatisfiable_jobs test.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11925: Fix flaky tests in test_computenode_dispatch_slurm.
Peter Amstutz [Wed, 2 Aug 2017 16:49:25 +0000 (12:49 -0400)]
11925: Fix flaky tests in test_computenode_dispatch_slurm.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11925: Make watchdog test more reliable.
Peter Amstutz [Fri, 28 Jul 2017 13:51:18 +0000 (09:51 -0400)]
11925: Make watchdog test more reliable.

Add wait so that it doesn't try to shut down the threads before they have had a
chance to start.  Also added services/nodemanage_suite test case which includes
both unit and integration tests for node manager.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago12024: Fix syntax error.
Tom Clegg [Wed, 2 Aug 2017 13:06:55 +0000 (09:06 -0400)]
12024: Fix syntax error.

refs #12024

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years agoMerge branch '12024-vendor-bundle-version'
Tom Clegg [Tue, 1 Aug 2017 21:51:05 +0000 (17:51 -0400)]
Merge branch '12024-vendor-bundle-version'

refs #12024

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12024: Build new Go packages when the vendor bundle changes.
Tom Clegg [Tue, 1 Aug 2017 19:31:45 +0000 (15:31 -0400)]
12024: Build new Go packages when the vendor bundle changes.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12057: Add "Priority" to list of reasons to boot a new node.
Peter Amstutz [Tue, 1 Aug 2017 17:31:44 +0000 (13:31 -0400)]
12057: Add "Priority" to list of reasons to boot a new node.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years agoMerge branch '7475-nodemgr-unsatisfiable-job-comms'
Lucas Di Pentima [Mon, 31 Jul 2017 14:52:19 +0000 (11:52 -0300)]
Merge branch '7475-nodemgr-unsatisfiable-job-comms'
Closes #7475

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago7475: Fixed integration test
Lucas Di Pentima [Sat, 29 Jul 2017 15:03:46 +0000 (12:03 -0300)]
7475: Fixed integration test

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years agoMerge branch '12037-cwl-v1.0.1' closes #12037
Peter Amstutz [Sat, 29 Jul 2017 14:11:54 +0000 (10:11 -0400)]
Merge branch '12037-cwl-v1.0.1' closes #12037

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago7475: Merge branch 'master' into 7475-nodemgr-unsatisfiable-job-comms
Lucas Di Pentima [Sat, 29 Jul 2017 14:11:43 +0000 (11:11 -0300)]
7475: Merge branch 'master' into 7475-nodemgr-unsatisfiable-job-comms

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years agoMerge branch '11158-fuse-projects' refs #11158
Peter Amstutz [Fri, 28 Jul 2017 19:59:11 +0000 (15:59 -0400)]
Merge branch '11158-fuse-projects' refs #11158

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago12037: Pull default arvados/jobs:latest image as needed.
Peter Amstutz [Fri, 28 Jul 2017 19:51:27 +0000 (15:51 -0400)]
12037: Pull default arvados/jobs:latest image as needed.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years agocloses #11906
radhika [Fri, 28 Jul 2017 15:25:36 +0000 (11:25 -0400)]
closes #11906

Merge branch '11906-nodemanager-ping'

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years ago11906: use the same name "ManagementToken" to enable healthcheck in all services
radhika [Fri, 28 Jul 2017 14:50:58 +0000 (10:50 -0400)]
11906: use the same name "ManagementToken" to enable healthcheck in all services

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years ago11906: add /_health/ping to nodemanager
radhika [Thu, 27 Jul 2017 22:53:15 +0000 (18:53 -0400)]
11906: add /_health/ping to nodemanager

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years agoMerge branch '12024-zero-content-length'
Tom Clegg [Thu, 27 Jul 2017 14:40:17 +0000 (10:40 -0400)]
Merge branch '12024-zero-content-length'

refs #12024

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years agorefs #11906
radhika [Thu, 27 Jul 2017 14:15:33 +0000 (10:15 -0400)]
refs #11906

Merge branch '11906-arv-git-httpd-ping'

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years agorefs #11906
radhika [Thu, 27 Jul 2017 14:12:51 +0000 (10:12 -0400)]
refs #11906

Merge branch '11906-keep-web-ping'

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years ago11158: Handle trash/untrash events for collections in projects.
Peter Amstutz [Thu, 27 Jul 2017 14:06:09 +0000 (10:06 -0400)]
11158: Handle trash/untrash events for collections in projects.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago12024: Use goamz fork to fix Go1.8-vs.-AWS transfer encoding bug.
Tom Clegg [Wed, 26 Jul 2017 20:49:23 +0000 (16:49 -0400)]
12024: Use goamz fork to fix Go1.8-vs.-AWS transfer encoding bug.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11158: Support incremental update of project contents based on websocket events.
Peter Amstutz [Tue, 11 Jul 2017 14:58:50 +0000 (10:58 -0400)]
11158: Support incremental update of project contents based on websocket events.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years agoRevert python sdk changes.
Peter Amstutz [Mon, 10 Jul 2017 20:52:41 +0000 (16:52 -0400)]
Revert python sdk changes.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11158: Fixes & test updates for ProjectDirectory.
Peter Amstutz [Mon, 3 Jul 2017 20:24:08 +0000 (16:24 -0400)]
11158: Fixes & test updates for ProjectDirectory.

* list_all() orders by uuid and uses it for paging.

* Move dynamic item lookup from __contains__ to __getitem__ to fix some tests.

* Remove test that check for pipeline objects because ProjectDirectory doesn't
create them any more.

* FuseSharedTest now runs in a multiprocess worker to avoid deadlock.

* Tweak local_store_get used in testing to raise NotFoundError for consistency
with real get().

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11158: Improve arvados.util.list_all() implementation to avoid relying on
Peter Amstutz [Fri, 30 Jun 2017 20:27:43 +0000 (16:27 -0400)]
11158: Improve arvados.util.list_all() implementation to avoid relying on
items_available.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11158: Restore paging to get full list of collections and projects (but still
Peter Amstutz [Fri, 30 Jun 2017 18:52:10 +0000 (14:52 -0400)]
11158: Restore paging to get full list of collections and projects (but still
don't load other object types).  Defer full listing load until first call to
items() to support efficient access of individual collections/subprojects by
name.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11158: Fix order="modified_at".
Peter Amstutz [Fri, 30 Jun 2017 17:13:12 +0000 (13:13 -0400)]
11158: Fix order="modified_at".

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11158: New behavior for project directories. Allow 'cd' into any collection or
Peter Amstutz [Thu, 29 Jun 2017 22:30:33 +0000 (18:30 -0400)]
11158: New behavior for project directories.  Allow 'cd' into any collection or
subproject that exists on the server, even if it isn't returned in the listing.
Now applies listing limit, ordered by most recent.  No longer lists other
object types (pipelines, links etc.)

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago12037: Fix tests.
Peter Amstutz [Wed, 26 Jul 2017 21:07:24 +0000 (17:07 -0400)]
12037: Fix tests.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years ago11906: Remove intermediary servemux and handler func.
Tom Clegg [Wed, 26 Jul 2017 21:14:42 +0000 (17:14 -0400)]
11906: Remove intermediary servemux and handler func.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11167: Re-added jobs integration test, adjusted to work with keep-web.
Lucas Di Pentima [Wed, 26 Jul 2017 20:34:58 +0000 (17:34 -0300)]
11167: Re-added jobs integration test, adjusted to work with keep-web.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11906: add /_health/ping to arv-git-httpd
radhika [Wed, 26 Jul 2017 20:30:14 +0000 (16:30 -0400)]
11906: add /_health/ping to arv-git-httpd

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years ago11906: add /_health/ping to keep-web
radhika [Wed, 26 Jul 2017 16:26:56 +0000 (12:26 -0400)]
11906: add /_health/ping to keep-web

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years ago12037: Support CWL v1.0.1 spec.
Peter Amstutz [Wed, 26 Jul 2017 15:11:24 +0000 (11:11 -0400)]
12037: Support CWL v1.0.1 spec.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curoverse.com>

6 years agoMerge branch '12027-slurmfail-during-setup'
Tom Clegg [Wed, 26 Jul 2017 14:44:33 +0000 (10:44 -0400)]
Merge branch '12027-slurmfail-during-setup'

refs #12027

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years agoMerge branch '12025-perm-cache-version'
Tom Clegg [Tue, 25 Jul 2017 19:14:28 +0000 (15:14 -0400)]
Merge branch '12025-perm-cache-version'

refs #12025

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12027: Exit "retry unlocked" if slurm fails during setup phases.
Tom Clegg [Tue, 25 Jul 2017 17:45:19 +0000 (13:45 -0400)]
12027: Exit "retry unlocked" if slurm fails during setup phases.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago12025: Change permission cache key to avoid upgrade bugs.
Tom Clegg [Tue, 25 Jul 2017 14:39:21 +0000 (10:39 -0400)]
12025: Change permission cache key to avoid upgrade bugs.

Also, set TTL on permission cache entries.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11167: Re-added another removed integration test, adjusted to work
Lucas Di Pentima [Mon, 24 Jul 2017 22:09:14 +0000 (19:09 -0300)]
11167: Re-added another removed integration test, adjusted to work
with keep-web.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Reverted deletion of integration test. Modified it so it
Lucas Di Pentima [Mon, 24 Jul 2017 20:53:58 +0000 (17:53 -0300)]
11167: Reverted deletion of integration test. Modified it so it
can work with keep-web instead of arv-get.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Removed conditional that check is keep_web is configured
Lucas Di Pentima [Mon, 24 Jul 2017 20:52:39 +0000 (17:52 -0300)]
11167: Removed conditional that check is keep_web is configured
because workbench already do this at start.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years agorefs #11906
radhika [Mon, 24 Jul 2017 19:02:33 +0000 (15:02 -0400)]
refs #11906

Merge branch '11906-keepproxy-ping'

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years ago11906: add /_health/ping to keepproxy
radhika [Mon, 24 Jul 2017 18:14:26 +0000 (14:14 -0400)]
11906: add /_health/ping to keepproxy

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years ago11167: Merge branch 'master' into 11167-wb-remove-arvget
Lucas Di Pentima [Mon, 24 Jul 2017 13:15:23 +0000 (10:15 -0300)]
11167: Merge branch 'master' into 11167-wb-remove-arvget

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Fixed integration test about collection's sharing link.
Lucas Di Pentima [Fri, 21 Jul 2017 18:15:57 +0000 (15:15 -0300)]
11167: Fixed integration test about collection's sharing link.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years agoMerge branch '11906-health-check-lib'
Tom Clegg [Fri, 21 Jul 2017 18:01:45 +0000 (14:01 -0400)]
Merge branch '11906-health-check-lib'

refs #11906

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11906: Clarify "zero value" test.
Tom Clegg [Fri, 21 Jul 2017 17:53:32 +0000 (13:53 -0400)]
11906: Clarify "zero value" test.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11906: Test 404 cases.
Tom Clegg [Fri, 21 Jul 2017 17:49:22 +0000 (13:49 -0400)]
11906: Test 404 cases.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago1906: Fix up doc comment.
Tom Clegg [Fri, 21 Jul 2017 17:49:04 +0000 (13:49 -0400)]
1906: Fix up doc comment.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11167: Test adjusted.
Lucas Di Pentima [Fri, 21 Jul 2017 16:54:49 +0000 (13:54 -0300)]
11167: Test adjusted.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Removed outdated comment.
Lucas Di Pentima [Fri, 21 Jul 2017 15:25:04 +0000 (12:25 -0300)]
11167: Removed outdated comment.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11167: Refuse to start when keep-web isn't configured.
Lucas Di Pentima [Fri, 21 Jul 2017 15:15:08 +0000 (12:15 -0300)]
11167: Refuse to start when keep-web isn't configured.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas@curoverse.com>

6 years ago11906: Remove keepstore's health-check unit tests.
Tom Clegg [Thu, 20 Jul 2017 21:24:09 +0000 (17:24 -0400)]
11906: Remove keepstore's health-check unit tests.

Now that the health check handler has its own unit tests, keepstore
only needs to check that it's wired up correctly.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11906: Add tests for sdk/go/health.
Tom Clegg [Thu, 20 Jul 2017 21:16:41 +0000 (17:16 -0400)]
11906: Add tests for sdk/go/health.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11906: Use sdk/go/health for keepstore health checks.
Tom Clegg [Thu, 20 Jul 2017 20:18:38 +0000 (16:18 -0400)]
11906: Use sdk/go/health for keepstore health checks.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago11906: Refactor health-check handler into SDK.
Tom Clegg [Thu, 20 Jul 2017 17:45:12 +0000 (13:45 -0400)]
11906: Refactor health-check handler into SDK.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years agoStyle fixes.
Tom Clegg [Thu, 20 Jul 2017 20:23:00 +0000 (16:23 -0400)]
Style fixes.

No issue #

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years ago10805: Bump debian version in fuse install doc.
Tom Clegg [Thu, 20 Jul 2017 20:20:39 +0000 (16:20 -0400)]
10805: Bump debian version in fuse install doc.

refs #10805

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years agocloses #11995
radhika [Thu, 20 Jul 2017 17:04:50 +0000 (13:04 -0400)]
closes #11995

Merge branch '11995-collecion-filetypes'

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>

6 years ago1195: add .bed and .cwl to file types that can previewed
radhika [Thu, 20 Jul 2017 13:20:53 +0000 (09:20 -0400)]
1195: add .bed and .cwl to file types that can previewed

Arvados-DCO-1.1-Signed-off-by: Radhika Chippada <radhika@curoverse.com>