arvados.git
6 years agoThe crunch-dispatch-slurm binary has a new dependency on the
Ward Vandewege [Fri, 2 Mar 2018 19:04:11 +0000 (14:04 -0500)]
The crunch-dispatch-slurm binary has a new dependency on the
lib/dispatchcloud directory. Reflect that in the build scripts.

refs #13078

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

6 years ago12737: Fix activesupport dependency from arvados gem.
Lucas Di Pentima [Thu, 1 Mar 2018 19:57:10 +0000 (16:57 -0300)]
12737: Fix activesupport dependency from arvados gem.

Upper version requirement was avoiding gem installation when upgrading rails
to a version >= 4.2.6.

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

6 years ago13140: Bump cwltool version
Peter Amstutz [Fri, 2 Mar 2018 15:00:12 +0000 (10:00 -0500)]
13140: Bump cwltool version

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

6 years agoMerge branch '12552-slurm-priority'
Tom Clegg [Thu, 1 Mar 2018 21:41:07 +0000 (16:41 -0500)]
Merge branch '12552-slurm-priority'

refs #12552

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '11850-singlecontainer-max-requirements'
jiayong2 [Wed, 28 Feb 2018 17:47:15 +0000 (17:47 +0000)]
Merge branch '11850-singlecontainer-max-requirements'

closes #11850

Arvados-DCO-1.1-Signed-off-by: Jiayong Li <jiayong@math.mit.edu>

6 years agoMerge branch 'master' into 11850-singlecontainer-max-requirements
jiayong2 [Wed, 28 Feb 2018 17:39:42 +0000 (17:39 +0000)]
Merge branch 'master' into 11850-singlecontainer-max-requirements

Arvados-DCO-1.1-Signed-off-by: Jiayong Li <jiayong@math.mit.edu>

6 years agoMerge branch '13078-slurm-feature-test'
Tom Clegg [Wed, 28 Feb 2018 16:27:29 +0000 (11:27 -0500)]
Merge branch '13078-slurm-feature-test'

refs #13078

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12552: Improve PrioritySpread docs.
Tom Clegg [Wed, 28 Feb 2018 16:27:12 +0000 (11:27 -0500)]
12552: Improve PrioritySpread docs.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13078: Accept "no nodes" as an indication that features are OK.
Tom Clegg [Tue, 27 Feb 2018 22:09:20 +0000 (17:09 -0500)]
13078: Accept "no nodes" as an indication that features are OK.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13078: Use --test-only instead of invalid --gres to check features.
Tom Clegg [Tue, 27 Feb 2018 22:01:19 +0000 (17:01 -0500)]
13078: Use --test-only instead of invalid --gres to check features.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '12315-exclude-child-procs'
Tom Clegg [Tue, 27 Feb 2018 18:05:13 +0000 (13:05 -0500)]
Merge branch '12315-exclude-child-procs'

closes #12315

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12315: Tidy up test params.
Tom Clegg [Tue, 27 Feb 2018 16:08:19 +0000 (11:08 -0500)]
12315: Tidy up test params.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '13037-composer-link' closes #13037
Peter Amstutz [Mon, 26 Feb 2018 21:27:08 +0000 (16:27 -0500)]
Merge branch '13037-composer-link' closes #13037

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

6 years agoMerge branch 'master' into 11850-singlecontainer-max-requirements
jiayong2 [Mon, 26 Feb 2018 20:11:08 +0000 (20:11 +0000)]
Merge branch 'master' into 11850-singlecontainer-max-requirements

Arvados-DCO-1.1-Signed-off-by: Jiayong Li <jiayong@math.mit.edu>

6 years agoTake sum for outdir requirement in single container
jiayong2 [Mon, 26 Feb 2018 20:06:59 +0000 (20:06 +0000)]
Take sum for outdir requirement in single container

Arvados-DCO-1.1-Signed-off-by: Jiayong Li <jiayong@math.mit.edu>

6 years agoMerge branch '12707-storage-classes-columns'
Lucas Di Pentima [Mon, 26 Feb 2018 18:22:44 +0000 (15:22 -0300)]
Merge branch '12707-storage-classes-columns'
Closes #12707

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

6 years ago12707: Adds default value setting on collection creation.
Lucas Di Pentima [Mon, 26 Feb 2018 17:26:41 +0000 (14:26 -0300)]
12707: Adds default value setting on collection creation.

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

6 years ago12552: Fix accidental textile link syntax.
Tom Clegg [Mon, 26 Feb 2018 16:14:18 +0000 (11:14 -0500)]
12552: Fix accidental textile link syntax.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13037: Add hidden api_token to Composer button to skip extra login
Peter Amstutz [Wed, 14 Feb 2018 16:22:57 +0000 (11:22 -0500)]
13037: Add hidden api_token to Composer button to skip extra login

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

6 years ago12552: Document PrioritySpread. Default to 10 if not configured.
Tom Clegg [Mon, 26 Feb 2018 15:42:16 +0000 (10:42 -0500)]
12552: Document PrioritySpread. Default to 10 if not configured.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12552: Skip extra lookup.
Tom Clegg [Mon, 26 Feb 2018 14:46:39 +0000 (09:46 -0500)]
12552: Skip extra lookup.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12552: Add slurm-renice test cases.
Tom Clegg [Mon, 26 Feb 2018 14:46:31 +0000 (09:46 -0500)]
12552: Add slurm-renice test cases.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12707: Some fixes and additions on storage classes:
Lucas Di Pentima [Fri, 23 Feb 2018 18:09:30 +0000 (15:09 -0300)]
12707: Some fixes and additions on storage classes:

* Remove the unnecessary default values from model.
* Fixes and tests on storage classes columns.
* Adds tests for 'exists' filter on jsonb array columns.

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

6 years ago12315: Propagate show_children to infinite scroll pages. Fix & add tests.
Peter Amstutz [Fri, 23 Feb 2018 21:29:06 +0000 (16:29 -0500)]
12315: Propagate show_children to infinite scroll pages.  Fix & add tests.

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

6 years ago12315: Add abstract show_children query parameter
Peter Amstutz [Fri, 23 Feb 2018 19:31:40 +0000 (14:31 -0500)]
12315: Add abstract show_children query parameter

Can't use requesting_container_uuid filter directly because it breaks
query of jobs and pipelines.  Add abstract show_children query
parameter.  Default is to hide children processes.

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

6 years agoMerge branch 'wtsi/13113-acr-collectioncache-retries' refs #13113
Peter Amstutz [Fri, 23 Feb 2018 18:28:50 +0000 (13:28 -0500)]
Merge branch 'wtsi/13113-acr-collectioncache-retries' refs #13113

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

6 years agoMerge branch 'wtsi/13093-crunch-dispatch-slurm-add-mem' refs #13093
Peter Amstutz [Fri, 23 Feb 2018 18:26:59 +0000 (13:26 -0500)]
Merge branch 'wtsi/13093-crunch-dispatch-slurm-add-mem' refs #13093

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

6 years agoMerge branch '13064-arv-mount-perf' closes #13064
Peter Amstutz [Fri, 23 Feb 2018 16:15:44 +0000 (11:15 -0500)]
Merge branch '13064-arv-mount-perf' closes #13064

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

6 years ago13064: Add comment about has_ref() and in_use() checks
Peter Amstutz [Fri, 23 Feb 2018 16:15:03 +0000 (11:15 -0500)]
13064: Add comment about has_ref() and in_use() checks

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

6 years ago12707: Add storage classes attributes to collections.
Lucas Di Pentima [Fri, 16 Feb 2018 23:47:49 +0000 (20:47 -0300)]
12707: Add storage classes attributes to collections.

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

6 years ago13064: Explicitly precompile regexes used in manifest parsing
Peter Amstutz [Thu, 22 Feb 2018 20:58:56 +0000 (15:58 -0500)]
13064: Explicitly precompile regexes used in manifest parsing

Seems to improve parsing time roughly 5-10%

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

6 years ago13064: Add __slots__ to ArvadosFile and FuseArvadosFile
Peter Amstutz [Thu, 22 Feb 2018 19:47:42 +0000 (14:47 -0500)]
13064: Add __slots__ to ArvadosFile and FuseArvadosFile

More than 50% decrease in memory footprint for large collections!!!

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

6 years ago13064: Check has_ref before checking in_use
Peter Amstutz [Thu, 22 Feb 2018 19:09:33 +0000 (14:09 -0500)]
13064: Check has_ref before checking in_use

Kernel behavior seems to be that if a file is referenced, its parents
remain referenced too.  This means has_ref() exits early when a
collection is not candidate for eviction.

By contrast, in_use() doesn't increment references on parents, so it
requires a full tree walk to determine if a collection is a candidate
for eviction.

Switching the order of the checks retains correctness but greatly
improves real-world performance.

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

6 years agoadd ReserveExtraRAM config option to crunch-dispatch-slurm
Joshua C. Randall [Thu, 15 Feb 2018 18:50:19 +0000 (18:50 +0000)]
add ReserveExtraRAM config option to crunch-dispatch-slurm

Arvados-DCO-1.1-Signed-off-by: Joshua C. Randall <jcrandall@alum.mit.edu>

6 years agoFix CollectionCache to pass num_retries to CollectionReader
Joshua Randall [Wed, 21 Feb 2018 20:51:56 +0000 (20:51 +0000)]
Fix CollectionCache to pass num_retries to CollectionReader

Arvados-DCO-1.1-Signed-off-by: Joshua C. Randall <jcrandall@alum.mit.edu>

6 years agoMerge branch '11645-keepstore-storageclasses' closes #11645
Peter Amstutz [Wed, 21 Feb 2018 20:46:32 +0000 (15:46 -0500)]
Merge branch '11645-keepstore-storageclasses' closes #11645

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

6 years ago11645: Add tests that StorageClasses is loaded from config
Peter Amstutz [Wed, 21 Feb 2018 20:42:48 +0000 (15:42 -0500)]
11645: Add tests that StorageClasses is loaded from config

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

6 years agoFix typos/grammar.
Ward Vandewege [Wed, 21 Feb 2018 20:13:02 +0000 (15:13 -0500)]
Fix typos/grammar.

No issue #

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

6 years agoMerge branch '13106-keepclient-slot' closes #13106
Peter Amstutz [Wed, 21 Feb 2018 17:06:04 +0000 (12:06 -0500)]
Merge branch '13106-keepclient-slot' closes #13106

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

6 years ago13106: Add note about the test.
Peter Amstutz [Wed, 21 Feb 2018 17:05:36 +0000 (12:05 -0500)]
13106: Add note about the test.

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

6 years ago11645: Add support for StorageClasses in volume config.
Peter Amstutz [Wed, 21 Feb 2018 16:56:39 +0000 (11:56 -0500)]
11645: Add support for StorageClasses in volume config.

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

6 years ago13106: Add test confirming deadlock
Peter Amstutz [Wed, 21 Feb 2018 01:32:44 +0000 (20:32 -0500)]
13106: Add test confirming deadlock

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

6 years ago13106: Ensure cache slot is reset on error
Peter Amstutz [Tue, 20 Feb 2018 21:29:22 +0000 (16:29 -0500)]
13106: Ensure cache slot is reset on error

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

6 years ago12315: Add "exclude child processes" checkbox to /all_processes.
Tom Clegg [Sat, 17 Feb 2018 04:18:17 +0000 (23:18 -0500)]
12315: Add "exclude child processes" checkbox to /all_processes.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '13098-assign-hostname'
Tom Clegg [Fri, 16 Feb 2018 19:09:30 +0000 (14:09 -0500)]
Merge branch '13098-assign-hostname'

refs #13098
refs #12199

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13098: 12199: Fix hostname assigned but not saved.
Tom Clegg [Fri, 16 Feb 2018 18:55:24 +0000 (13:55 -0500)]
13098: 12199: Fix hostname assigned but not saved.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '13063-update-azure-sdk'
Tom Clegg [Fri, 16 Feb 2018 17:48:34 +0000 (12:48 -0500)]
Merge branch '13063-update-azure-sdk'

refs #13063

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13063: Use upstream azure-sdk-for-go.
Tom Clegg [Fri, 16 Feb 2018 17:41:48 +0000 (12:41 -0500)]
13063: Use upstream azure-sdk-for-go.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '13090-eval-timeout' closes #13090
Peter Amstutz [Fri, 16 Feb 2018 16:41:01 +0000 (11:41 -0500)]
Merge branch '13090-eval-timeout'  closes #13090

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

6 years ago13090: Pass through --eval-timeout to container command line.
Peter Amstutz [Fri, 16 Feb 2018 15:53:49 +0000 (10:53 -0500)]
13090: Pass through --eval-timeout to container command line.

Also adds a check so that --ignore-docker-for-reuse can't be used with
containers, refs #12666

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

6 years ago12552: Adjust SLURM niceness to bring priority into desired order.
Tom Clegg [Fri, 16 Feb 2018 07:29:22 +0000 (02:29 -0500)]
12552: Adjust SLURM niceness to bring priority into desired order.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12552: Add SLURM niceness calculator.
Tom Clegg [Thu, 15 Feb 2018 23:17:52 +0000 (18:17 -0500)]
12552: Add SLURM niceness calculator.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoAdd missing parameter to update call.
Tom Clegg [Thu, 15 Feb 2018 20:31:33 +0000 (15:31 -0500)]
Add missing parameter to update call.

fixes #12199

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '11876-R-deps' refs #11876
Peter Amstutz [Thu, 15 Feb 2018 19:51:43 +0000 (14:51 -0500)]
Merge branch '11876-R-deps' refs #11876

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

6 years ago11876: Pin R deps that are installed from gitub.
Peter Amstutz [Thu, 15 Feb 2018 18:34:11 +0000 (13:34 -0500)]
11876: Pin R deps that are installed from gitub.

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

6 years agoMerge branch '13063-update-azure-sdk'
Tom Clegg [Thu, 15 Feb 2018 18:38:55 +0000 (13:38 -0500)]
Merge branch '13063-update-azure-sdk'

closes #13063

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '11454-remove-button-removal'
Lucas Di Pentima [Thu, 15 Feb 2018 16:53:26 +0000 (13:53 -0300)]
Merge branch '11454-remove-button-removal'
Refs #11454

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

6 years agoR SDK documentation link fix refs #11876
Peter Amstutz [Thu, 15 Feb 2018 16:07:24 +0000 (11:07 -0500)]
R SDK documentation link fix refs #11876

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

6 years ago11454: Code readability enhancement.
Lucas Di Pentima [Thu, 15 Feb 2018 16:00:57 +0000 (13:00 -0300)]
11454: Code readability enhancement.

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

6 years ago13063: Don't use azure default delay-and-retry loop.
Tom Clegg [Thu, 15 Feb 2018 15:55:37 +0000 (10:55 -0500)]
13063: Don't use azure default delay-and-retry loop.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago11454: Don't show 'Remove' session button when listed on remoteHosts.
Lucas Di Pentima [Thu, 15 Feb 2018 14:57:31 +0000 (11:57 -0300)]
11454: Don't show 'Remove' session button when listed on remoteHosts.

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

6 years ago13063: Update azure storage client library.
Tom Clegg [Wed, 14 Feb 2018 21:16:12 +0000 (16:16 -0500)]
13063: Update azure storage client library.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '12863-wb-cr-status'
Lucas Di Pentima [Wed, 14 Feb 2018 16:53:04 +0000 (13:53 -0300)]
Merge branch '12863-wb-cr-status'
Closes #12863

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

6 years agoMerge branch '13023-wb-log-newlines'
Lucas Di Pentima [Wed, 14 Feb 2018 16:08:05 +0000 (13:08 -0300)]
Merge branch '13023-wb-log-newlines'
Closes #13023

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

6 years agoMerge branch '12199-dispatch-to-node-type'
Tom Clegg [Wed, 14 Feb 2018 15:33:49 +0000 (10:33 -0500)]
Merge branch '12199-dispatch-to-node-type'

refs #12199

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '13025-keepstore-metrics'
Tom Clegg [Wed, 14 Feb 2018 15:20:02 +0000 (10:20 -0500)]
Merge branch '13025-keepstore-metrics'

refs #13025

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12199: Fix job_uuid missing from nodes#update response.
Tom Clegg [Wed, 14 Feb 2018 15:10:24 +0000 (10:10 -0500)]
12199: Fix job_uuid missing from nodes#update response.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13111: Reload project dir if fsync(2) was called since last load.
Tom Clegg [Tue, 13 Feb 2018 22:29:38 +0000 (17:29 -0500)]
13111: Reload project dir if fsync(2) was called since last load.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12199: Ensure scratch space for tmp mounts when choosing node type.
Tom Clegg [Tue, 13 Feb 2018 20:10:40 +0000 (15:10 -0500)]
12199: Ensure scratch space for tmp mounts when choosing node type.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13023: Workaround firefox copy&paste bug on jobs & pipeline log viewers.
Lucas Di Pentima [Tue, 13 Feb 2018 19:45:59 +0000 (16:45 -0300)]
13023: Workaround firefox copy&paste bug on jobs & pipeline log viewers.

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

6 years ago13023: Fix integration test.
Lucas Di Pentima [Tue, 13 Feb 2018 19:13:39 +0000 (16:13 -0300)]
13023: Fix integration test.

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

6 years ago12199: Move services/dispatchcloud to lib/dispatchcloud.
Tom Clegg [Tue, 13 Feb 2018 16:40:18 +0000 (11:40 -0500)]
12199: Move services/dispatchcloud to lib/dispatchcloud.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13023: Fixes related tests.
Lucas Di Pentima [Tue, 13 Feb 2018 16:19:47 +0000 (13:19 -0300)]
13023: Fixes related tests.

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

6 years ago13023: Replaces div with pre tags on 'Recent logs' viewer.
Lucas Di Pentima [Tue, 13 Feb 2018 16:01:30 +0000 (13:01 -0300)]
13023: Replaces div with pre tags on 'Recent logs' viewer.

This is to workaround a Firefox bug:
https://bugzilla.mozilla.org/show_bug.cgi?id=1174452

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

6 years ago12863: Adds CR's state label on description cell.
Lucas Di Pentima [Tue, 13 Feb 2018 13:56:44 +0000 (10:56 -0300)]
12863: Adds CR's state label on description cell.

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

6 years ago12863: Adds column showing process status on project pages.
Lucas Di Pentima [Mon, 12 Feb 2018 22:41:13 +0000 (19:41 -0300)]
12863: Adds column showing process status on project pages.

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

6 years ago12199: Merge branch 'master' into 12199-dispatch-to-node-type
Tom Clegg [Mon, 12 Feb 2018 22:28:22 +0000 (17:28 -0500)]
12199: Merge branch 'master' into 12199-dispatch-to-node-type

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12199: Improve race handling in busywait.
Tom Clegg [Mon, 12 Feb 2018 22:06:13 +0000 (17:06 -0500)]
12199: Improve race handling in busywait.

The previous implementation was "call f() until it's truthy, then
assert f()". The assertion fails if f() returns truthy but then
returns falsy on the next call.

The new implementation doesn't call f() again after it returns truthy
once.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12199: Fix errant uses of size.name that should be size.id.
Tom Clegg [Mon, 12 Feb 2018 21:48:15 +0000 (16:48 -0500)]
12199: Fix errant uses of size.name that should be size.id.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12199: Update integration tests.
Tom Clegg [Mon, 12 Feb 2018 21:39:23 +0000 (16:39 -0500)]
12199: Update integration tests.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch 'master' into 11850-singlecontainer-max-requirements
jiayong2 [Mon, 12 Feb 2018 20:05:29 +0000 (20:05 +0000)]
Merge branch 'master' into 11850-singlecontainer-max-requirements

Arvados-DCO-1.1-Signed-off-by: Jiayong Li <jiayong@math.mit.edu>

6 years agoAdd changes to arvworkflow.py for taking the max requirement
jiayong2 [Mon, 12 Feb 2018 20:03:56 +0000 (20:03 +0000)]
Add changes to arvworkflow.py for taking the max requirement

Arvados-DCO-1.1-Signed-off-by: Jiayong Li <jiayong@math.mit.edu>

6 years ago13025: Merge branch 'master' into 13025-keepstore-metrics
Tom Clegg [Mon, 12 Feb 2018 19:53:50 +0000 (14:53 -0500)]
13025: Merge branch 'master' into 13025-keepstore-metrics

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago13025: Revert returning WroteStatus()==200 if no header was written.
Tom Clegg [Mon, 12 Feb 2018 19:51:17 +0000 (14:51 -0500)]
13025: Revert returning WroteStatus()==200 if no header was written.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '11454-wb-federated-search'
Lucas Di Pentima [Mon, 12 Feb 2018 18:41:44 +0000 (15:41 -0300)]
Merge branch '11454-wb-federated-search'
Closes #11454
Refs #12959

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

6 years ago11454: Avoid instantiating new SessionDB before autoRedirectToHomeCluster()
Lucas Di Pentima [Mon, 12 Feb 2018 17:15:11 +0000 (14:15 -0300)]
11454: Avoid instantiating new SessionDB before autoRedirectToHomeCluster()

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

6 years ago11454: A couple of fixes/enhancements:
Lucas Di Pentima [Mon, 12 Feb 2018 16:40:11 +0000 (13:40 -0300)]
11454: A couple of fixes/enhancements:

* Only try to migrate non federated sessions on /sessions page.
* autoLoadRemoteHosts only loads missing remotes, without reactivating
disabled sessions.

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

6 years ago13025: Lint.
Tom Clegg [Mon, 12 Feb 2018 16:30:43 +0000 (11:30 -0500)]
13025: Lint.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago11454: Removes workbench links on /sessions page.
Lucas Di Pentima [Mon, 12 Feb 2018 16:12:07 +0000 (13:12 -0300)]
11454: Removes workbench links on /sessions page.

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

6 years agoMerge branch '12840-cancelled-pipeline'
Tom Clegg [Mon, 12 Feb 2018 02:27:32 +0000 (21:27 -0500)]
Merge branch '12840-cancelled-pipeline'

fixes #12840

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '12991-docker-memory-limit'
Tom Clegg [Mon, 12 Feb 2018 02:24:48 +0000 (21:24 -0500)]
Merge branch '12991-docker-memory-limit'

fixes #12991

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '13022-tmp-cleanup'
Tom Clegg [Mon, 12 Feb 2018 02:23:40 +0000 (21:23 -0500)]
Merge branch '13022-tmp-cleanup'

fixes #13022

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '11876-r-sdk' documentation, refs #11876
Peter Amstutz [Fri, 9 Feb 2018 19:20:32 +0000 (14:20 -0500)]
Merge branch '11876-r-sdk' documentation, refs #11876

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

6 years ago11876: Improve formatting
Peter Amstutz [Fri, 9 Feb 2018 19:10:43 +0000 (14:10 -0500)]
11876: Improve formatting

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

6 years ago11876: Update installation instructions
Peter Amstutz [Fri, 9 Feb 2018 18:42:42 +0000 (13:42 -0500)]
11876: Update installation instructions

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

6 years ago11876: Update install instructions to r.arvados.org
Peter Amstutz [Fri, 9 Feb 2018 14:36:34 +0000 (09:36 -0500)]
11876: Update install instructions to r.arvados.org

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

6 years ago11876: Arvbox support for building R docs
Peter Amstutz [Fri, 9 Feb 2018 14:11:18 +0000 (09:11 -0500)]
11876: Arvbox support for building R docs

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

6 years ago11876: Build R SDK reference pages for doc site
Peter Amstutz [Fri, 9 Feb 2018 14:14:51 +0000 (09:14 -0500)]
11876: Build R SDK reference pages for doc site

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

6 years ago13111: Propagate errors in Child().
Tom Clegg [Thu, 8 Feb 2018 23:16:53 +0000 (18:16 -0500)]
13111: Propagate errors in Child().

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago11454: Replaced javascript events with proper form values
Lucas Di Pentima [Fri, 9 Feb 2018 02:26:57 +0000 (23:26 -0300)]
11454: Replaced javascript events with proper form values
on the search results form buttons.

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