arvados.git
2 years ago19070: --create/update-workflow also implies --match-submitter-images
Peter Amstutz [Fri, 6 May 2022 14:23:03 +0000 (10:23 -0400)]
19070: --create/update-workflow also implies --match-submitter-images

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

2 years ago19070: Add integration test for copying dependencies
Peter Amstutz [Wed, 4 May 2022 20:57:01 +0000 (16:57 -0400)]
19070: Add integration test for copying dependencies

Fix python tests

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

2 years ago19070: Fix test_arvados_jobs_image
Peter Amstutz [Wed, 4 May 2022 18:17:18 +0000 (14:17 -0400)]
19070: Fix test_arvados_jobs_image

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

2 years ago19070: Fix most tests
Peter Amstutz [Tue, 3 May 2022 22:05:43 +0000 (18:05 -0400)]
19070: Fix most tests

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

2 years ago19070: Add --copy-deps/--no-copy-deps
Peter Amstutz [Tue, 3 May 2022 21:01:26 +0000 (17:01 -0400)]
19070: Add --copy-deps/--no-copy-deps

Copies dependencies by default using --create-workflow and --update
workflow

Keeps old behavior by default when running from the command line (can
get new behavior with --copy-deps).

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

2 years ago19070: Always make copy of Docker images with --project-uuid
Peter Amstutz [Thu, 28 Apr 2022 16:53:55 +0000 (12:53 -0400)]
19070: Always make copy of Docker images with --project-uuid

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

2 years ago19070: keepdocker will use image in arvados
Peter Amstutz [Thu, 28 Apr 2022 16:44:10 +0000 (12:44 -0400)]
19070: keepdocker will use image in arvados

If not available in Docker

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

2 years agoMerge branch '19103-aca-list-default-limit'. Closes #19103
Lucas Di Pentima [Wed, 11 May 2022 14:02:50 +0000 (11:02 -0300)]
Merge branch '19103-aca-list-default-limit'. Closes #19103

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

2 years ago19103: Fixes the default Limit param for ACA list requests.
Lucas Di Pentima [Wed, 11 May 2022 13:02:00 +0000 (10:02 -0300)]
19103: Fixes the default Limit param for ACA list requests.

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

2 years ago19103: Exposes the bug with a test.
Lucas Di Pentima [Wed, 11 May 2022 12:48:48 +0000 (09:48 -0300)]
19103: Exposes the bug with a test.

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

2 years agoMerge branch '19095-singularity-bugfix'
Tom Clegg [Tue, 10 May 2022 14:04:34 +0000 (10:04 -0400)]
Merge branch '19095-singularity-bugfix'

fixes #19095

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

2 years ago19095: Link build script doc page.
Tom Clegg [Tue, 10 May 2022 14:02:45 +0000 (10:02 -0400)]
19095: Link build script doc page.

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

2 years ago19095: Add upgrade note about singularity version.
Tom Clegg [Tue, 10 May 2022 14:00:27 +0000 (10:00 -0400)]
19095: Add upgrade note about singularity version.

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

2 years agoMerge branch '18794-config-health'
Tom Clegg [Mon, 9 May 2022 18:53:19 +0000 (14:53 -0400)]
Merge branch '18794-config-health'

closes #18794

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

2 years ago18794: Increase timeout and logging for rails restart test.
Tom Clegg [Mon, 9 May 2022 14:42:34 +0000 (10:42 -0400)]
18794: Increase timeout and logging for rails restart test.

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

2 years ago18794: Merge branch 'main'
Tom Clegg [Mon, 9 May 2022 13:49:36 +0000 (09:49 -0400)]
18794: Merge branch 'main'

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

2 years agoMerge branch '18947-keep-balance'
Tom Clegg [Fri, 6 May 2022 13:49:13 +0000 (09:49 -0400)]
Merge branch '18947-keep-balance'

refs #18947

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

2 years ago19095: Update singularity install doc link to 3.9.
Tom Clegg [Fri, 6 May 2022 13:26:20 +0000 (09:26 -0400)]
19095: Update singularity install doc link to 3.9.

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

2 years agoMerge branch '18995-code-cleanup-5'
Ward Vandewege [Fri, 6 May 2022 12:47:39 +0000 (08:47 -0400)]
Merge branch '18995-code-cleanup-5'

refs #18995

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago18995: Merge branch 'main' into 18995-code-cleanup-5
Ward Vandewege [Fri, 6 May 2022 12:47:11 +0000 (08:47 -0400)]
18995: Merge branch 'main' into 18995-code-cleanup-5

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years agoMerge branch '19015-rvm-gemset-passenger-fix'
Ward Vandewege [Fri, 6 May 2022 12:20:49 +0000 (08:20 -0400)]
Merge branch '19015-rvm-gemset-passenger-fix'

closes #19015

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago19015: Merge branch 'main' into 19015-rvm-gemset-passenger-fix
Ward Vandewege [Fri, 6 May 2022 12:19:56 +0000 (08:19 -0400)]
19015: Merge branch 'main' into 19015-rvm-gemset-passenger-fix

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago18794: Make "touch restart.txt" recipe work when owned by root.
Tom Clegg [Thu, 5 May 2022 21:42:46 +0000 (17:42 -0400)]
18794: Make "touch restart.txt" recipe work when owned by root.

If root has done "touch {tmp}/restart.txt", then the www-data user
cannot utime() or write() the existing file, but can remove it and
create a new one.

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

2 years ago18794: Auto-reload workbench1 config, too.
Tom Clegg [Thu, 5 May 2022 21:21:33 +0000 (17:21 -0400)]
18794: Auto-reload workbench1 config, too.

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

2 years ago18794: Fix wb1 health-check tests, add metrics tests.
Tom Clegg [Thu, 5 May 2022 18:14:57 +0000 (14:14 -0400)]
18794: Fix wb1 health-check tests, add metrics tests.

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

2 years ago18794: Fix reload_config: don't assume restart.txt already exists.
Tom Clegg [Thu, 5 May 2022 16:59:45 +0000 (12:59 -0400)]
18794: Fix reload_config: don't assume restart.txt already exists.

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

2 years ago18794: Merge branch 'main'
Tom Clegg [Thu, 5 May 2022 15:25:13 +0000 (11:25 -0400)]
18794: Merge branch 'main'

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

2 years ago18794: Wait up to 10s for rails to notice config change.
Tom Clegg [Thu, 5 May 2022 15:23:56 +0000 (11:23 -0400)]
18794: Wait up to 10s for rails to notice config change.

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

2 years ago18794: Add version metric to RailsAPI.
Tom Clegg [Thu, 5 May 2022 14:53:53 +0000 (10:53 -0400)]
18794: Add version metric to RailsAPI.

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

2 years ago18794: Add version and config metrics to workbench1.
Tom Clegg [Thu, 5 May 2022 14:53:32 +0000 (10:53 -0400)]
18794: Add version and config metrics to workbench1.

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

2 years ago18995: add a few missing alt texts to image.
Ward Vandewege [Thu, 5 May 2022 14:40:30 +0000 (10:40 -0400)]
18995: add a few missing alt texts to image.

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago18947: Update keep-balance package script.
Tom Clegg [Mon, 2 May 2022 19:18:51 +0000 (15:18 -0400)]
18947: Update keep-balance package script.

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

2 years ago18947: Update boot recipe for keep-balance.
Tom Clegg [Mon, 2 May 2022 19:18:10 +0000 (15:18 -0400)]
18947: Update boot recipe for keep-balance.

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

2 years ago19095: Remove bit about loopback device errors in singularity 3.9.1.
Tom Clegg [Thu, 5 May 2022 13:55:59 +0000 (09:55 -0400)]
19095: Remove bit about loopback device errors in singularity 3.9.1.

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

2 years ago19095: Update singularity to 3.9.9 to get loopback device bugfix.
Tom Clegg [Thu, 5 May 2022 13:44:41 +0000 (09:44 -0400)]
19095: Update singularity to 3.9.9 to get loopback device bugfix.

https://github.com/sylabs/singularity/pull/458

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

2 years ago15730: Add rsync dependency in dev/test env.
Tom Clegg [Wed, 4 May 2022 20:46:45 +0000 (16:46 -0400)]
15730: Add rsync dependency in dev/test env.

Now needed by arvados-server boot to run passenger in test mode.

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

2 years agoMerge branch '19077-arvbox-fixes' refs #19077
Peter Amstutz [Mon, 2 May 2022 21:32:13 +0000 (17:32 -0400)]
Merge branch '19077-arvbox-fixes' refs #19077

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

2 years ago19077: yarn is already installed
Peter Amstutz [Mon, 2 May 2022 21:31:49 +0000 (17:31 -0400)]
19077: yarn is already installed

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

2 years ago19077: Remove Composer & default to singularity
Peter Amstutz [Mon, 2 May 2022 20:47:32 +0000 (16:47 -0400)]
19077: Remove Composer & default to singularity

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

2 years ago18947: Move keep-balance systemd unit file.
Tom Clegg [Mon, 2 May 2022 19:17:18 +0000 (15:17 -0400)]
18947: Move keep-balance systemd unit file.

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

2 years ago18947: Refactor keep-balance as arvados-server subcommand.
Tom Clegg [Thu, 28 Apr 2022 19:17:05 +0000 (15:17 -0400)]
18947: Refactor keep-balance as arvados-server subcommand.

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

2 years agoMerge branch '18947-keep-web'
Tom Clegg [Mon, 2 May 2022 19:12:52 +0000 (15:12 -0400)]
Merge branch '18947-keep-web'

refs #18947

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

2 years ago18947: Update description field in keep-web systemd unit file.
Tom Clegg [Mon, 2 May 2022 19:12:05 +0000 (15:12 -0400)]
18947: Update description field in keep-web systemd unit file.

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

2 years ago19015: update the nginx override so that systemd is happy even when RVM
Ward Vandewege [Fri, 29 Apr 2022 18:55:04 +0000 (14:55 -0400)]
19015: update the nginx override so that systemd is happy even when RVM
       is not installed. We don't install the override when RVM is not
       present, so this is a "just in case".

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago18947: Refactor keep-web as arvados-server command.
Tom Clegg [Fri, 29 Apr 2022 00:20:05 +0000 (20:20 -0400)]
18947: Refactor keep-web as arvados-server command.

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

2 years agoAdd a 2 minute lock timeout to the first invocation of apt. This is
Ward Vandewege [Thu, 28 Apr 2022 15:15:44 +0000 (11:15 -0400)]
Add a 2 minute lock timeout to the first invocation of apt. This is
supported from apt 1.9.1 (i.e Debian 11, ubuntu 20.04 and up). It avoids
race conditions, e.g. caused by cloud-init running apt on a node that
has just booted.

No issue #

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago19075: When constructing a workflow request, set use_existing=false
Peter Amstutz [Wed, 27 Apr 2022 20:18:57 +0000 (16:18 -0400)]
19075: When constructing a workflow request, set use_existing=false

refs #19075

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

2 years agoDo not pipe into `grep -q`, because that stops reading as soon as a
Ward Vandewege [Thu, 28 Apr 2022 14:43:02 +0000 (10:43 -0400)]
Do not pipe into `grep -q`, because that stops reading as soon as a
match is found, which can cause a SIGPIPE.

No issue #

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago19015: installer fix: work around a Passenger issue with the detection of RVM
Ward Vandewege [Wed, 27 Apr 2022 21:56:26 +0000 (17:56 -0400)]
19015: installer fix: work around a Passenger issue with the detection of RVM

This fixes the on-demand building of passenger_native_support.so when
RVM is in use.

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago19075 When constructing a workflow request, set use_existing=false
Peter Amstutz [Wed, 27 Apr 2022 20:18:57 +0000 (16:18 -0400)]
19075 When constructing a workflow request, set use_existing=false

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

2 years ago18794: Fix "check" command test.
Tom Clegg [Wed, 27 Apr 2022 17:33:40 +0000 (13:33 -0400)]
18794: Fix "check" command test.

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

2 years ago18794: Fix routing test.
Tom Clegg [Wed, 27 Apr 2022 17:21:14 +0000 (13:21 -0400)]
18794: Fix routing test.

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

2 years ago18794: Remove passenger --no-install-runtime args in test env.
Tom Clegg [Wed, 27 Apr 2022 15:07:44 +0000 (11:07 -0400)]
18794: Remove passenger --no-install-runtime args in test env.

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

2 years agoMerge branch '18947-githttpd'
Tom Clegg [Wed, 27 Apr 2022 14:07:50 +0000 (10:07 -0400)]
Merge branch '18947-githttpd'

refs #18947

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

2 years agoMerge branch '18696-rnaseq-training' refs #18696
Peter Amstutz [Wed, 27 Apr 2022 13:50:44 +0000 (09:50 -0400)]
Merge branch '18696-rnaseq-training' refs #18696

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

2 years ago18794: Don't restart if new config is unreadable or unchanged.
Tom Clegg [Tue, 26 Apr 2022 19:46:16 +0000 (15:46 -0400)]
18794: Don't restart if new config is unreadable or unchanged.

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

2 years ago18794: Don't start config-check thread in packaging tasks.
Tom Clegg [Tue, 26 Apr 2022 19:32:24 +0000 (15:32 -0400)]
18794: Don't start config-check thread in packaging tasks.

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

2 years ago18794: Recommend "arvados-server check" after upgrade/config change.
Tom Clegg [Tue, 26 Apr 2022 19:14:50 +0000 (15:14 -0400)]
18794: Recommend "arvados-server check" after upgrade/config change.

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

2 years ago18794: "check" defaults to succinct human-readable output.
Tom Clegg [Tue, 26 Apr 2022 19:04:31 +0000 (15:04 -0400)]
18794: "check" defaults to succinct human-readable output.

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

2 years ago18696: Integrate RNASeq-cwl-training into user guide
Peter Amstutz [Tue, 26 Apr 2022 18:41:42 +0000 (14:41 -0400)]
18696: Integrate RNASeq-cwl-training into user guide

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

2 years ago18794: Restart RailsAPI workers when config file changes.
Tom Clegg [Tue, 26 Apr 2022 15:16:26 +0000 (11:16 -0400)]
18794: Restart RailsAPI workers when config file changes.

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

2 years ago18794: Export current version as metric (Go services only).
Tom Clegg [Mon, 25 Apr 2022 18:17:45 +0000 (14:17 -0400)]
18794: Export current version as metric (Go services only).

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

2 years ago18794: Avoid failing health check on incomplete-but-working config.
Tom Clegg [Wed, 13 Apr 2022 19:11:56 +0000 (15:11 -0400)]
18794: Avoid failing health check on incomplete-but-working config.

It is typical to have some InternalURLs that are only reachable by
from the same node (not necessarily where health-check runs) or are
missing entirely because only Nginx needs to know where they are.

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

2 years ago18794: Add /metrics endpoint to RailsAPI.
Tom Clegg [Mon, 11 Apr 2022 18:35:03 +0000 (14:35 -0400)]
18794: Add /metrics endpoint to RailsAPI.

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

2 years ago18794: Fail health check on mismatched configs.
Tom Clegg [Mon, 11 Apr 2022 15:18:50 +0000 (11:18 -0400)]
18794: Fail health check on mismatched configs.

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

2 years ago18794: Export config load time as prometheus metric.
Tom Clegg [Fri, 8 Apr 2022 21:48:21 +0000 (17:48 -0400)]
18794: Export config load time as prometheus metric.

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

2 years ago18794: Export config timestamp/hash as prometheus metric.
Tom Clegg [Fri, 8 Apr 2022 20:05:26 +0000 (16:05 -0400)]
18794: Export config timestamp/hash as prometheus metric.

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

2 years ago18794: Add SourceTimestamp and SourceSHA256 to config-dump output.
Tom Clegg [Fri, 8 Apr 2022 15:08:14 +0000 (11:08 -0400)]
18794: Add SourceTimestamp and SourceSHA256 to config-dump output.

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

2 years ago18794: Add "arvados-server check" subcommand.
Tom Clegg [Thu, 7 Apr 2022 20:11:55 +0000 (16:11 -0400)]
18794: Add "arvados-server check" subcommand.

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

2 years agoMerge branch '18835-uploadfiles-test' refs #18835
Peter Amstutz [Tue, 26 Apr 2022 13:28:43 +0000 (09:28 -0400)]
Merge branch '18835-uploadfiles-test' refs #18835

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

2 years agoSalt installer multinode AWS example: modernize Arvados config a bit,
Ward Vandewege [Tue, 26 Apr 2022 12:52:53 +0000 (08:52 -0400)]
Salt installer multinode AWS example: modernize Arvados config a bit,
switch to using one S3 bucket for simplicity, make sure that the default
setting for CloudVMs/DriverParameters/IAMInstanceProfile matches
Volumes/DriverParameters/IAMRole.

refs #19054

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago18835: Add a test for the is_in_collection feature of PathMapper
Peter Amstutz [Mon, 25 Apr 2022 21:00:53 +0000 (17:00 -0400)]
18835: Add a test for the is_in_collection feature of PathMapper

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

2 years agoMerge branch '19054-local-keepstore-aws-doc-update'
Ward Vandewege [Mon, 25 Apr 2022 20:52:18 +0000 (16:52 -0400)]
Merge branch '19054-local-keepstore-aws-doc-update'

closes #19054

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago19054: Merge branch 'main' into 19054-local-keepstore-aws-doc-update
Ward Vandewege [Mon, 25 Apr 2022 20:51:22 +0000 (16:51 -0400)]
19054: Merge branch 'main' into 19054-local-keepstore-aws-doc-update

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago19054: more doc changes.
Ward Vandewege [Mon, 25 Apr 2022 20:32:52 +0000 (16:32 -0400)]
19054: more doc changes.

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago19054: doc update
Ward Vandewege [Mon, 25 Apr 2022 20:13:38 +0000 (16:13 -0400)]
19054: doc update

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years agoMerge branch '17301-cwl-oom' refs #17301
Peter Amstutz [Mon, 25 Apr 2022 20:06:06 +0000 (16:06 -0400)]
Merge branch '17301-cwl-oom' refs #17301

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

2 years ago17301: Add more logging handler teardown
Peter Amstutz [Mon, 25 Apr 2022 17:11:23 +0000 (13:11 -0400)]
17301: Add more logging handler teardown

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

2 years ago17301: Clean up logging handler
Peter Amstutz [Mon, 25 Apr 2022 16:03:51 +0000 (12:03 -0400)]
17301: Clean up logging handler

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

2 years ago18947: Remove errant uses of runsu.sh.
Tom Clegg [Mon, 25 Apr 2022 14:57:28 +0000 (10:57 -0400)]
18947: Remove errant uses of runsu.sh.

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

2 years ago18947: Update doc uses of arv-git-httpd to arvados-git-httpd.
Tom Clegg [Mon, 25 Apr 2022 14:16:10 +0000 (10:16 -0400)]
18947: Update doc uses of arv-git-httpd to arvados-git-httpd.

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

2 years agoMerge branch '18888-cwl-dir-arg' refs #18888
Peter Amstutz [Mon, 25 Apr 2022 13:52:48 +0000 (09:52 -0400)]
Merge branch '18888-cwl-dir-arg' refs #18888

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

2 years ago17301: Test handles line breaks
Peter Amstutz [Mon, 25 Apr 2022 13:51:23 +0000 (09:51 -0400)]
17301: Test handles line breaks

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

2 years ago17301: Shorted OOM message. Limit added detail to 40 lines.
Peter Amstutz [Thu, 21 Apr 2022 18:16:49 +0000 (14:16 -0400)]
17301: Shorted OOM message.  Limit added detail to 40 lines.

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

2 years ago18888: Fix tests
Peter Amstutz [Thu, 21 Apr 2022 16:12:53 +0000 (12:12 -0400)]
18888: Fix tests

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

2 years agoMerge branch '18894-manifest-size-doc' refs #18894
Peter Amstutz [Wed, 20 Apr 2022 14:43:27 +0000 (10:43 -0400)]
Merge branch '18894-manifest-size-doc' refs #18894

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

2 years ago18894: Mention API.MaxRequestSize
Peter Amstutz [Wed, 20 Apr 2022 14:42:54 +0000 (10:42 -0400)]
18894: Mention API.MaxRequestSize

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

2 years ago17301: Fold subsequent messages into details
Peter Amstutz [Wed, 20 Apr 2022 13:46:50 +0000 (09:46 -0400)]
17301: Fold subsequent messages into details

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

2 years ago17301: Log all messages in details
Peter Amstutz [Tue, 19 Apr 2022 19:41:24 +0000 (15:41 -0400)]
17301: Log all messages in details

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

2 years ago17301: Report warning about OOM killer when exit code 137
Peter Amstutz [Tue, 19 Apr 2022 19:40:56 +0000 (15:40 -0400)]
17301: Report warning about OOM killer when exit code 137

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

2 years ago18888: Ensure that default File/Directory references are normalized
Peter Amstutz [Tue, 19 Apr 2022 17:19:05 +0000 (13:19 -0400)]
18888: Ensure that default File/Directory references are normalized

Add test.

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

2 years agoMerge branch '18994-cwl-basename' refs #18994
Peter Amstutz [Tue, 19 Apr 2022 14:13:32 +0000 (10:13 -0400)]
Merge branch '18994-cwl-basename' refs #18994

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

2 years ago18994: Remove commented out code
Peter Amstutz [Tue, 19 Apr 2022 14:12:36 +0000 (10:12 -0400)]
18994: Remove commented out code

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

2 years agoMerge branch '18995-code-cleanup-2'
Ward Vandewege [Fri, 15 Apr 2022 22:10:36 +0000 (18:10 -0400)]
Merge branch '18995-code-cleanup-2'

refs #18995

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago18995: Merge branch 'main' into 18995-code-cleanup-2
Ward Vandewege [Fri, 15 Apr 2022 22:09:44 +0000 (18:09 -0400)]
18995: Merge branch 'main' into 18995-code-cleanup-2

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago18894: Add section "estimating manifest size"
Peter Amstutz [Fri, 15 Apr 2022 20:54:41 +0000 (16:54 -0400)]
18894: Add section "estimating manifest size"

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

2 years agoMerge branch '18995-code-cleanup-4'
Ward Vandewege [Fri, 15 Apr 2022 20:22:24 +0000 (16:22 -0400)]
Merge branch '18995-code-cleanup-4'

refs #18995

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years ago18995: Merge branch 'main' into 18995-code-cleanup-4
Ward Vandewege [Fri, 15 Apr 2022 20:20:16 +0000 (16:20 -0400)]
18995: Merge branch 'main' into 18995-code-cleanup-4

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>

2 years agoMerge branch '18992-hpc-local-keepstore'
Tom Clegg [Fri, 15 Apr 2022 19:28:21 +0000 (15:28 -0400)]
Merge branch '18992-hpc-local-keepstore'

closes #18992

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

2 years ago18995: add a generic font family for font awesome.
Ward Vandewege [Fri, 15 Apr 2022 18:51:14 +0000 (14:51 -0400)]
18995: add a generic font family for font awesome.

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <ward@curii.com>