Activity

From 07/31/2014 to 08/29/2014

08/29/2014

08:38 pm Story #3550: [SDKs] arv-run-pipeline-instance supports running jobs locally using arv-crunch-job
Still some bugs to work out (perhaps arv-crunch-job has regressed). On lightning-dev2:... Tom Clegg
03:50 pm Story #3550 (In Progress): [SDKs] arv-run-pipeline-instance supports running jobs locally using a...
Tom Clegg
08:11 pm Task #3779 (Resolved): Review 3637-selection-through-chooser
Tom Clegg
08:10 pm Task #3776 (Resolved): Pass selected items list through chooser to its action
Tom Clegg
06:24 pm Task #3776 (In Progress): Pass selected items list through chooser to its action
Tom Clegg
04:46 pm Task #3776 (Resolved): Pass selected items list through chooser to its action
Tom Clegg
08:06 pm Revision 0f30cd32 (arvados): 3637: Propagate checkbox selection through chooser modal, remove ses...
Tom Clegg
08:02 pm Revision a16c764a (arvados): 3637: Operate only on selections within this container, even if clip...
Tom Clegg
06:24 pm Task #3778 (Resolved): Add a test case
Tom Clegg
06:23 pm Task #3777 (Resolved): review and merge 3704-broken-filters-param
Tom Clegg
06:15 pm Task #3773 (Resolved): Reproduce and diagnose
Tom Clegg
04:00 pm Task #3773 (In Progress): Reproduce and diagnose
Tom Clegg
04:00 pm Task #3773 (Resolved): Reproduce and diagnose
Tom Clegg
06:14 pm Bug #3586: [API] Job "priority" field defaults to "null", should default to "0"
Ah, I get it (I think): the jobs_owner_uuid_name_unique and pipeline_instance_owner_uuid_name_unique indices stayed i... Tom Clegg
04:54 pm Bug #3586: [API] Job "priority" field defaults to "null", should default to "0"
This index seems to have been removed from structure.sql in commit:80cbf4d9, not sure why/how:... Tom Clegg
05:54 pm Revision 01022866 (arvados): 3704: Force params[:filters] into native format so views and helpers...
Tom Clegg
04:50 pm Task #3749 (In Progress): Review 3586-job-priority
Tom Clegg
04:35 pm Revision 72de9238 (arvados): 3644: Project and Home directory work. Added support for returning ...
timestamps on projects, collections, files. Should be update
CollectionDirectory if the underlying collection record...
Peter Amstutz
04:22 pm Feature #3775 (Resolved): [Crunch] arv-crunch-job should work in local mode with an arvados-hoste...
Currently, in local mode, repository="arvados" only works if ./arvados/.git happens to exist when crunch-job runs.
...
Tom Clegg
04:10 pm Bug #3774 (Closed): [Crunch] crunch-job tries to put non-scalar structures in the environment
Reviewing a Job log, I found this little tidbit during a Docker launch @--env=JOB_PARAMETER_COMMAND=ARRAY(0x1fbbf30)@... Brett Smith
03:51 pm Task #3772 (Resolved): Review 3550-local-pipeline
Tom Clegg
03:50 pm Task #3771 (Resolved): Add --run-jobs-here flag
Tom Clegg
03:50 pm Task #3771 (Resolved): Add --run-jobs-here flag
Tom Clegg
03:48 pm Revision 72af8e48 (arvados): 3550: Add --run-jobs-here flag to arv-run-pipeline-instance.
Run new jobs locally with arv-crunch-job instead of asking
crunch-dispatch to run them.
Tom Clegg
03:46 pm Revision 8a4691d7 (arvados): 3550: Improve startup time by removing excess api client instantiation.
Tom Clegg
03:43 pm Bug #3770 (Resolved): [Workbench] Fiddlesticks in Job Log tab for unreadable Log
A user has permission to see a Job through a Project. They can visit the Job page just fine. However, they do not h... Brett Smith
03:12 pm Task #3759 (Resolved): arv-copy authenticates to multiple Arvados instances
Tim Pierce
01:30 pm Task #3759 (In Progress): arv-copy authenticates to multiple Arvados instances
Tim Pierce
03:10 pm Revision 143bbe8d (arvados): 3699: add arv-copy
* arvados.config.load(config_file) reads config_file for Arvados
configuration settings. It returns a hash with th...
Tim Pierce
02:57 pm Bug #3769 (Resolved): [API] In crunch-dispatch, throttle by bytes_per_minute or _node_minute
crunch_limit_log_event_bytes_per_job is currently a hard-coded number in the server config. It would be much more use... Ward Vandewege
02:40 pm Feature #3768 (Closed): [SDKs] Speculatively pre-fetch data blocks while reading from a collection.
Tom Clegg
01:51 pm Task #3767 (Resolved): Get feedback from Abram and Sasha on proposed directory hierarchy
Tom Clegg
01:47 pm Task #3766 (Resolved): Send screen capture to Tom O'Keefe to get design/layout advice
Tom Clegg
12:40 pm Bug #3763 (Resolved): [Workbench] "Move selected" on collections produces error.
Applied in changeset arvados|commit:51d54eb5a828cb60005c5c2d446d375b4ff8baac. Anonymous
10:43 am Bug #3763: [Workbench] "Move selected" on collections produces error.
commit:8afd225... Looks good, and the "move" button wfm now. Please merge. Thanks! Tom Clegg
09:13 am Bug #3763 (In Progress): [Workbench] "Move selected" on collections produces error.
Peter Amstutz
09:11 am Bug #3763 (Resolved): [Workbench] "Move selected" on collections produces error.
Select a collection. Selection->Move selected will result in an error. Using "move to this project" in clippy resul... Peter Amstutz
12:37 pm Revision 51d54eb5 (arvados): Merge branch '3763-move-collections-error' closes #3763
Peter Amstutz
10:40 am Task #3764 (Resolved): Review 3763-move-collections-error
Tom Clegg
10:32 am Task #3764 (Resolved): Review 3763-move-collections-error
Peter Amstutz
10:35 am Task #3765 (Resolved): [Workbench] Pipeline instance #show page should not show the _current_ tem...
Tom Clegg
10:17 am Revision 8afd2250 (arvados): 3763: Workbench will not send attributes to API server that are nil ...
changed. Peter Amstutz

08/28/2014

08:03 pm Story #3705: [Keep] Generalize PullList module to BlockWorkList
(Updated spec to communicate with channels instead of Get and Set methods) Tom Clegg
07:24 pm Revision 7c797619 (arvados): Fix $leave_temp in clear_temp() no issue #
Peter Amstutz
07:24 pm Revision 7c797619 (arvados-dev): Fix $leave_temp in clear_temp() no issue #
Peter Amstutz
06:09 pm Story #3762 (Resolved): [Keep] Process entries on the current "delete" list.
Keep should process the file asynchronously and delete each block in it.
This is written out in more detail at the...
Tom Clegg
05:47 pm Bug #3720: [API] Fetching collection record is very slow when manifest is not small.
The vast majority of the API response time is in @as_api_object@. Here's some rough benchmarking added to my API ser... Brett Smith
03:36 pm Bug #3720: [API] Fetching collection record is very slow when manifest is not small.
This bug has both an API server component and a Workbench component. Here are the slow bits when I visit the Workben... Brett Smith
03:11 pm Bug #3720 (In Progress): [API] Fetching collection record is very slow when manifest is not small.
Brett Smith
05:12 pm Revision ef6ab39e (arvados): 3644: Working on adding timestamps
Peter Amstutz
04:30 pm Story #3761 (Resolved): [Keep] Process entries on the current pull list.
Currently, when receiving its first pull list, keepstore sets up a WorkQueue instance called pullq. At the same time ... Tom Clegg
04:30 pm Bug #3714 (Resolved): [Workbench] small bugs in "report bug on the page" feature
Applied in changeset arvados|commit:21c6d252b279c9714419bf65da07e32246572238. Radhika Chippada
04:17 pm Bug #3714: [Workbench] small bugs in "report bug on the page" feature
commit:c96deb5 looks good to me. Thank you! Brett Smith
02:03 pm Bug #3714: [Workbench] small bugs in "report bug on the page" feature
Reviewing commit:0313947
* It feels a little unfortunate that the disable code is duplicated, once in the JavaScri...
Brett Smith
04:27 pm Task #3746 (Resolved): Review branch: 3714-report-issue-issues
Radhika Chippada
01:43 pm Task #3746 (In Progress): Review branch: 3714-report-issue-issues
Brett Smith
04:25 pm Feature #3760 (New): [Workbench] When referencing an object that is not readable (e.g., deleted o...
Example (current behavior):
# Users A and B are in a group together.
# User A shares a project with user B.
# User...
Tom Clegg
04:21 pm Revision 21c6d252 (arvados): closes #3714
Merge branch '3714-report-issue-issues' Radhika Chippada
04:21 pm Revision 974f1904 (arvados): Merge branch 'master' into 3714-report-issue-issues
Radhika Chippada
04:19 pm Revision 4938505b (arvados): 3637: fix test now that "Copy selections" and "Move selections" opti...
Radhika Chippada
04:09 pm Revision 4917bb2c (arvados): 3637: remove "Copy selections" and "Move selections" options from cl...
Radhika Chippada
04:05 pm Revision 2679a9f6 (arvados): Merge branch 'master' into 3637-copy-selections
Radhika Chippada
04:03 pm Revision c96deb58 (arvados): 3714: minor updates from review feedback
Radhika Chippada
03:39 pm Revision 0368e13e (arvados): Merge branch 'master' into 3714-report-issue-issues
Radhika Chippada
03:38 pm Revision 0b007070 (arvados): 3637: refactor code for better maintenance.
Radhika Chippada
03:25 pm Revision f2d89d3e (arvados): Fix arv-put tests refs #3709
Peter Amstutz
03:20 pm Revision a3be17c5 (arvados): Merge branch 'master' into 3637-copy-selections
Radhika Chippada
03:19 pm Revision 419fb180 (arvados): 3637: add copy selected items functionality to project selection dro...
Radhika Chippada
03:11 pm Revision 701c816e (arvados): 3644: More renaming GroupDirectory to ProjectDirectory, removing nam...
Peter Amstutz
02:56 pm Task #3759 (Resolved): arv-copy authenticates to multiple Arvados instances
* Looks in @$HOME/.config/arvados/${instance}.conf@ for authentication settings.
* Prompts user for ARVADOS_API_HOST...
Tim Pierce
02:54 pm Task #3758 (Resolved): arv-copy works on git repos
Tim Pierce
02:52 pm Bug #3757 (New): [Workbench] Clicking on the show link for a 'can_login' permission link renders ...
Ward Vandewege
02:50 pm Bug #3756 (Resolved): [Workbench] As an admin user, clicking 'Show' in the user list on your own ...
Proper fix:
* Better way to ensure {"move this project to..." → Home → OK} redirects to projects#show with...
Ward Vandewege
02:50 pm Bug #3719 (Resolved): [Crunch] run-command crashes: TypeError: coercing to Unicode ... NoneType f...
Applied in changeset arvados|commit:97473ddf7cd581a048af7b6585ce3ef75ff502c0. Anonymous
02:38 pm Bug #3719: [Crunch] run-command crashes: TypeError: coercing to Unicode ... NoneType found
Reviewing commit:78317da
* In SubstitutionError, why override @__init__@ just to call the super method? You can w...
Brett Smith
09:27 am Bug #3719 (In Progress): [Crunch] run-command crashes: TypeError: coercing to Unicode ... NoneTyp...
Peter Amstutz
02:49 pm Revision 97473ddf (arvados): Merge branch '3719-improve-subst-error-reporting' closes #3719
Peter Amstutz
02:48 pm Revision 462fbba4 (arvados): 3719: Python style/wording fixes.
Peter Amstutz
02:45 pm Story #3709 (Resolved): [SDKs] arv-put should return Arvados UUID of collection by default instea...
Applied in changeset arvados|commit:4fc443bfedf165307795e2b9e6c022008b5d7639. Anonymous
02:22 pm Story #3709: [SDKs] arv-put should return Arvados UUID of collection by default instead of portab...
Reviewing commit:c59670e and it looks good to me. In case it's helpful for the future, you might find testing @mydic... Brett Smith
11:32 am Story #3709 (In Progress): [SDKs] arv-put should return Arvados UUID of collection by default ins...
Peter Amstutz
02:42 pm Revision 4fc443bf (arvados): Merge branch '3709-arv-put-print-uuid' closes #3709
Peter Amstutz
02:41 pm Revision cd9c840e (arvados): 3644: Switched around command line parameters a bit. Will default t...
now. Renamed GroupsDirectory to HomeDirectory and GroupDirectory to
ProjectDirectory.
Peter Amstutz
02:23 pm Task #3747 (In Progress): Review 3719-improve-subst-error-reporting
Brett Smith
10:09 am Task #3747 (Resolved): Review 3719-improve-subst-error-reporting
Peter Amstutz
02:23 pm Task #3754 (Resolved): Review 3709-arv-put-print-uuid
Peter Amstutz
02:09 pm Task #3754 (In Progress): Review 3709-arv-put-print-uuid
Brett Smith
01:52 pm Task #3754 (Resolved): Review 3709-arv-put-print-uuid
Peter Amstutz
01:58 pm Revision 5336eb79 (arvados): Fix nil dereference causing a fiddlesticks on the collections index ...
Peter Amstutz
01:51 pm Task #3727 (Resolved): Fix crunch-job
Peter Amstutz
11:22 am Task #3727 (In Progress): Fix crunch-job
Peter Amstutz
01:35 pm Revision c2add3a9 (arvados): Merge branch 'master' into 3709-arv-put-print-uuid
Peter Amstutz
01:33 pm Revision 050a8d39 (arvados): Complain and fail if exec() returns. No issue #
Tom Clegg
01:20 pm Bug #3751 (Resolved): [Crunch] crunchstat does not pass through its stdin to its child process
Applied in changeset arvados|commit:8350db2288e8f915bb70328e89c2717d69ba62ad. Anonymous
11:37 am Bug #3751 (Resolved): [Crunch] crunchstat does not pass through its stdin to its child process
-(Also noticed that its diagnostic message goes to stdout instead of stderr.)- (this part seems to have been user err... Tom Clegg
01:18 pm Revision 8350db22 (arvados): Pass stdin to child process. closes #3751
Tom Clegg
01:16 pm Revision 97c2c0f4 (arvados): 3751: Pass stdin to child process.
Tom Clegg
11:44 am Task #3752 (Resolved): Define BlockManager interfaces and types
Tim Pierce
11:33 am Bug #3644 (In Progress): [SDK] Fix arv-mount --tags and --groups modes to handle "home" project a...
Peter Amstutz
11:32 am Task #3728 (In Progress): Handle "home" and name fields correctly.
Peter Amstutz
11:22 am Task #3726 (Resolved): Change arv-put
Peter Amstutz
11:22 am Task #3726 (In Progress): Change arv-put
Peter Amstutz
11:20 am Revision c59670ea (arvados): 3709: arv-put now prints collection uuid by default. Add --portable...
to arv-put to get the old behavior (print PDH). Crunch-job uses arv-put
--portable-data-hash to get the PDH to put i...
Peter Amstutz
11:18 am Revision 80cbf4d9 (arvados): 3586: Migrate "priority" column so it is an integer instead of as st...
Peter Amstutz
11:06 am Revision 638c2c22 (arvados): Run given command even if src tree already installed. No issue #
Tom Clegg
10:54 am Bug #3750 (New): [Workbench] Columns displaying items on project page should be sortable
User should be able to choose whether to sort by name, by creation time, modified time, etc. Peter Amstutz
10:38 am Bug #3586 (In Progress): [API] Job "priority" field defaults to "null", should default to "0"
Peter Amstutz
10:37 am Revision 38dc6b9d (arvados): 3586: Set priority to "0" if nil. Fix test fixtures.
Peter Amstutz
10:22 am Task #3749 (Resolved): Review 3586-job-priority
Peter Amstutz
10:22 am Task #3748 (Resolved): Add migration
Peter Amstutz
10:14 am Task #3748 (Resolved): Add migration
Peter Amstutz
10:22 am Revision bf1f3980 (arvados): 3586: Set job priority column default to '0', add NOT NULL constraint.
Peter Amstutz
10:17 am Bug #3637 (In Progress): [Workbench] Add "copy" operation to selection dropdown on projects#show ...
Radhika Chippada
10:08 am Task #3721 (Resolved): Improve error reporting
Peter Amstutz
09:26 am Task #3721 (In Progress): Improve error reporting
Peter Amstutz
10:06 am Revision 78317dad (arvados): 3719: Robust-put uses run-command logger.
Peter Amstutz
10:05 am Bug #3339 (Resolved): [Workbench] Project descriptions on the dashboard should be truncated at th...
Applied in changeset arvados|commit:d1f510e7fa9f1b2656c54c1e9b3ea4e4466c9d1e. Radhika Chippada
09:45 am Bug #3339: [Workbench] Project descriptions on the dashboard should be truncated at the first par...
Radhika,
Thanks very much for these changes (commit:d199bf8). I like this branch a lot. There's just one small t...
Brett Smith
09:01 am Bug #3339: [Workbench] Project descriptions on the dashboard should be truncated at the first par...
Brett:
1. I did some refactoring and tightening of the code, and also renamed the method.
2. I removed the extr...
Radhika Chippada
10:02 am Revision 55ed403e (arvados): 3719: run-command uses its own logger instead of the default Python ...
avoid cross talk with badly behaved modules. Peter Amstutz
10:02 am Revision d1f510e7 (arvados): closes #3339
Merge branch '3339-truncate-project-descriptions' Radhika Chippada
10:01 am Revision 78f13ceb (arvados): 3339: fix typo in test
Radhika Chippada
10:01 am Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Tom Clegg wrote:
> Tim Pierce wrote:
> > @fmt.Printf("%s", foo)@ will call the @foo.String()@ method if it exists. ...
Tim Pierce
09:52 am Task #3611 (Resolved): Review 3499-home-project-docs-wip
Tom Clegg
09:51 am Task #3506 (Resolved): Help Sally/Brian/Abram
Tom Clegg
09:51 am Task #3713 (Resolved): Review 3339-truncate-project-descriptions
Tom Clegg
09:02 am Task #3713: Review 3339-truncate-project-descriptions
Pushed updates, if you would like to take another look. Radhika Chippada
09:51 am Task #3708 (Resolved): Review 3342-pipeline-output-current-project
Tom Clegg
09:48 am Revision 22954b4f (arvados): Merge branch 'master' into 3339-truncate-project-descriptions
Radhika Chippada
09:30 am Revision 7aea6d3d (arvados): Remove assertion testing for obsolete output_is_persistent field. r...
Peter Amstutz
09:29 am Revision d199bf8a (arvados): Merge branch 'master' into 3339-truncate-project-descriptions
Radhika Chippada
09:26 am Revision e32be386 (arvados): 3719: Raise more specific SubstitutionError instead of generic excep...
user syntax errors. Don't print stack trace on SubstitutionError. Peter Amstutz
09:22 am Revision 0313947c (arvados): 3714: update tests to verify that the send report button is disabled...
Radhika Chippada
09:17 am Revision 7b277922 (arvados): Merge branch 'master' into 3714-report-issue-issues
Radhika Chippada
08:53 am Revision a3755ca0 (arvados): Set Gemfile version target for arvados-cli to correct version. refs...
Peter Amstutz
08:05 am Revision 2b43d13d (arvados): 3339: some refactoring of the render textile impl. improve the test ...
Radhika Chippada

08/27/2014

05:44 pm Revision 15907a13 (arvados): Revert arvados gems to versions that actually exist. refs #3342
Tom Clegg
05:32 pm Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Tim Pierce wrote:
> @fmt.Printf("%s", foo)@ will call the @foo.String()@ method if it exists. So in the case of Pul...
Tom Clegg
05:00 pm Story #3414 (Resolved): [Keep] Keep Server accepts list of blocks to pull from other servers
Applied in changeset arvados|commit:3204b60e04bf8613858bfc4a753d7114f6ca90a3. Tim Pierce
11:50 am Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Tom Clegg wrote:
> Tim Pierce wrote:
> > New revision at commit:20fec88
> >
> > Added logging for both successfu...
Tim Pierce
10:53 am Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Tim Pierce wrote:
> New revision at commit:20fec88
>
> Added logging for both successful and unsuccessful pull re...
Tom Clegg
10:20 am Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Tom Clegg wrote:
> Handy example: http://golang.org/src/pkg/container/list/list.go
That's a great example. In fa...
Tim Pierce
10:09 am Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Handy example: http://golang.org/src/pkg/container/list/list.go Tom Clegg
05:31 pm Task #3746 (Resolved): Review branch: 3714-report-issue-issues
Small update to the report issue page to disable the submit button until problem description is entered. Radhika Chippada
05:29 pm Task #3716 (Resolved): submitting without contents in the "describe the problem" is possible, sho...
Disable the submit button until the problem description is entered. Radhika Chippada
05:26 pm Task #3716 (In Progress): submitting without contents in the "describe the problem" is possible, ...
I will disable the submit button until the user enters the problem description. Radhika Chippada
01:11 pm Task #3716 (Resolved): submitting without contents in the "describe the problem" is possible, sho...
Ward Vandewege
05:29 pm Task #3715 (Resolved): workbench and api server version always render as 6333000
6333000 was the commit hash number and it was determined that this is not an issue. Verified with other commits. Radhika Chippada
01:10 pm Task #3715 (Resolved): workbench and api server version always render as 6333000
This should be a git hash. Ward Vandewege
05:21 pm Revision d2804a5f (arvados): 3714: disable submit button until problem description is entered.
Radhika Chippada
05:17 pm Bug #3339: [Workbench] Project descriptions on the dashboard should be truncated at the first par...
Comments on commit:0fe8a55
* From an code maintainability perspective, I don't understand why it's helpful to sepa...
Brett Smith
11:41 am Bug #3339 (In Progress): [Workbench] Project descriptions on the dashboard should be truncated at...
Radhika Chippada
05:10 pm Bug #3342 (Resolved): [Crunch] Pipeline outputs not added to current project.
Applied in changeset arvados|commit:0042e4b42d9f4d3900aefc68617cb28c5a61a522. Anonymous
03:05 pm Bug #3342: [Crunch] Pipeline outputs not added to current project.
LGTM to merge. Thanks for this. Tim Pierce
02:59 pm Bug #3342: [Crunch] Pipeline outputs not added to current project.
Tim Pierce wrote:
> Reviewing at commit:7c8e8d37:
>
> apps/workbench/app/models/pipeline_instance.rb:
> * Since ...
Peter Amstutz
11:40 am Bug #3342: [Crunch] Pipeline outputs not added to current project.
Reviewing at commit:7c8e8d37:
apps/workbench/app/models/pipeline_instance.rb:
* Since each component has its own ...
Tim Pierce
05:08 pm Task #3697 (Resolved): Review 3414-keep-pull-handler
Tim Pierce
05:04 pm Revision 0042e4b4 (arvados): Merge branch '3342-pipeline-output-current-project' closes #3342
Peter Amstutz
05:03 pm Revision 3630931a (arvados): 3342: Fix syntax error in pipeline_instance.rb. Restore code in cru...
that reads manifest text from arv-get pipe. Peter Amstutz
04:59 pm Revision 3204b60e (arvados): Merge branch '3414-keep-pull-handler'
Closes #3414. Tim Pierce
04:56 pm Revision 46b3cec9 (arvados): 3414: fix log typo
%s -> %v Tim Pierce
04:53 pm Bug #3714 (In Progress): [Workbench] small bugs in "report bug on the page" feature
Radhika Chippada
01:09 pm Bug #3714 (Resolved): [Workbench] small bugs in "report bug on the page" feature
Ward Vandewege
04:52 pm Task #3713 (In Progress): Review 3339-truncate-project-descriptions
Brett Smith
12:33 pm Task #3713 (Resolved): Review 3339-truncate-project-descriptions
Radhika Chippada
04:45 pm Task #3745 (Resolved): Print output immediately after read
Tim Pierce
04:38 pm Task #3744 (Resolved): arv-copy works on pipeline instances
Tim Pierce
04:38 pm Task #3743 (Resolved): arv-copy works on docker images
Tim Pierce
04:38 pm Task #3742 (Resolved): arv-copy works on collections
Tim Pierce
04:34 pm Task #3741 (Resolved): API server filters for trashed objects
API server implicitly selects delete_at is null or delete_at > now when querying collections table (rails "default sc... Tim Pierce
04:32 pm Task #3739 (Resolved): Add default_trash_lifetime
Add default_trash_lifetime config setting to workbench config/application.default.yml
See [[Hacking Workbench]]
Tim Pierce
03:57 pm Task #3738 (New): arv-run-pipeline-instance: display workbench URI instead of the bare uuid
Tom Clegg
03:57 pm Task #3737 (New): Include workbench URI in discovery document
(the one from application.yml) Tom Clegg
03:41 pm Task #3736 (Closed): [SDKs] Document Python Crunch SDK
This includes both docstrings and illustrating the new API in the tutorial/user guide. Brett Smith
03:30 pm Task #3735 (Resolved): Make crunch-job retry when it calls arv-put
Brett Smith
03:30 pm Feature #3734 (New): [Keep] Keepstore and keepproxy support HTTP Range requests
If a request has a Range header, read only the desired portion from the data volume, and return the segment with appr... Tim Pierce
03:28 pm Task #3733 (Resolved): Write wrapper
Peter Amstutz
03:28 pm Task #3732 (Resolved): Fix bugs the second half of the sprint
Brett Smith
03:28 pm Task #3731 (Resolved): Add pipe support to run-command
Peter Amstutz
03:28 pm Task #3730 (Resolved): Fix bugs the first half of the sprint
Brett Smith
03:27 pm Task #3729 (Resolved): Design command line
Peter Amstutz
03:27 pm Task #3728 (Resolved): Handle "home" and name fields correctly.
Peter Amstutz
03:27 pm Support #3702: [Support] Fix bugs and write tests (the first half of the sprint)
We've agreed to split responsibility for this story at the sprint's halfway point. I'll take point for the first half. Brett Smith
03:26 pm Task #3727 (Resolved): Fix crunch-job
Peter Amstutz
03:26 pm Task #3726 (Resolved): Change arv-put
Peter Amstutz
03:24 pm Task #3723 (Resolved): Implement dashboard layout at https://arvados.org/attachments/download/349...
...minus the stats that don't exist like $ and rating - perhaps the top right will have room for a live-from-websocke... Peter Amstutz
03:24 pm Task #3721 (Resolved): Improve error reporting
Peter Amstutz
03:17 pm Story #3188 (Closed): [Workbench] Merge "show job" functionality into "show pipeline instance" page
Subsumed by #3187 Tom Clegg
03:16 pm Bug #3147: [SDKs] Python clients should automatically retry failed API and Keep requests (includi...
Carried forward to following sprint with 1 story point. Brett Smith
03:08 pm Story #3157: [Workbench] Admin button to download user list as CSV
A few questions:
* Do we want all of prefs or just prefs.profile? Basically, do we want to define the columns in t...
Radhika Chippada
03:06 pm Task #3650 (Resolved): Implement PullHandler
Tim Pierce
03:02 pm Bug #3720: [API] Fetching collection record is very slow when manifest is not small.
https://workbench.qr1hi.arvadosapi.com/collections/d071779966740d0f4884c17c3712a6a6+8369520 → bad gateway Tom Clegg
02:59 pm Bug #3720 (Resolved): [API] Fetching collection record is very slow when manifest is not small.
This makes nginx give up on Workbench and say "502 Bad Gateway". Tom Clegg
03:02 pm Revision 854060d1 (arvados): 3342: Handle case in PipelineInstance#friendly_link_name where
pipeline_template_uuid doesn't return a PipelineTemplate. Removed unnecessary
code from crunch-job to calculate md5 ...
Peter Amstutz
03:01 pm Bug #3719: [Crunch] run-command crashes: TypeError: coercing to Unicode ... NoneType found
Pipeline instance qr1hi-d1hrv-uwem8ll6v65vin0 .
Here is the relevant error section taken from the log:...
Abram Connelly
02:59 pm Bug #3719 (Resolved): [Crunch] run-command crashes: TypeError: coercing to Unicode ... NoneType f...
Tom Clegg
02:55 pm Feature #3467 (Closed): [Crunch] Specify human readable name for pipeline instance output
Duplicate of #3342 Tom Clegg
02:51 pm Task #3718 (Closed): Hash out desired API with science team
Address questions on the wiki from Tom and others. Show the science team different alternatives and get their input ... Brett Smith
02:51 pm Feature #3607 (Resolved): [Crunch] crunch-dispatch can go into run-pipeline-instance or dispatch ...
Tom Clegg
02:47 pm Feature #2881 (New): [OPS] Basic node manager that can start/stop compute nodes based on demand
Brett Smith
02:24 pm Revision 0fe8a55a (arvados): 3339: update test to verify textile description in my projects panel...
Radhika Chippada
02:09 pm Support #3717 (Resolved): In[Support] stalling Arvados on AWS - ubuntu14.04 with docker
Ward Vandewege
01:59 pm Support #3717: In[Support] stalling Arvados on AWS - ubuntu14.04 with docker
Hi Alla,
This is a known bug in Docker 1.2.0 -- see https://github.com/docker/docker/issues/7714. It's been fixed ...
Ward Vandewege
01:31 pm Support #3717: In[Support] stalling Arvados on AWS - ubuntu14.04 with docker
Hi there,
What version of docker are you using?
Thanks,
Ward.
Ward Vandewege
01:26 pm Support #3717 (Resolved): In[Support] stalling Arvados on AWS - ubuntu14.04 with docker
Hello,
I am getting an error and I hope you can help me
+ '[' -r etc/debian_version ']'
+ lsbDist=Debian
+ ...
Alla Bushoy
02:06 pm Story #3711 (In Progress): [Docs] Update Arvados permissions model in docs
Peter Amstutz
10:55 am Story #3711 (In Progress): [Docs] Update Arvados permissions model in docs
Merge https://arvados.org/projects/arvados/wiki/Groups_Projects_Ownership_and_Permissions_Specification with http://d... Peter Amstutz
01:46 pm Support #3505 (Resolved): [Sample pipelines] Support science team
Tom Clegg
12:32 pm Task #3681 (Resolved): Truncate project description display in dashboard at the first textile lin...
Radhika Chippada
12:31 pm Task #3680 (Resolved): Update project description display in dashboard to display textile formatt...
Radhika Chippada
12:30 pm Revision 0b3427a0 (arvados): 3339: render truncated textile descriptions in dashboard
Radhika Chippada
11:50 am Revision 902e9ebf (arvados): 3414: update comment for code review
Tim Pierce
10:38 am Task #3708 (In Progress): Review 3342-pipeline-output-current-project
Tim Pierce
09:41 am Task #3708 (Resolved): Review 3342-pipeline-output-current-project
Peter Amstutz
10:38 am Revision 7c8e8d37 (arvados): 3342: Update documentation. Add "output_name", remove "output_is_pe...
Peter Amstutz
10:17 am Bug #3710 (Resolved): [Workbench] Clipboard "Combine selected collections and files into a new co...
Trying to combine these two files results in an empty collection: d41d8cd98f00b204e9800998ecf8427e+0
e64eb06386970...
Bryan Cosca
09:56 am Story #3709 (Resolved): [SDKs] arv-put should return Arvados UUID of collection by default instea...
Users want to be able to find their collections, so we should give them the Arvados UUID of the collection object ins... Peter Amstutz
09:33 am Revision cf5ffa1f (arvados): 3342: Tweak pipeline component status rendering. Support "output_na...
to specify no output should be added to the current project. Peter Amstutz
09:07 am Revision 24c42c71 (arvados): 3342: Fix links to log files to use portable_data_hash. Remove spur...
Improve error logging. Peter Amstutz

08/26/2014

11:48 pm Task #3707 (Resolved): Ensure crunch-job task output collation can survive with all permission fe...
Tom Clegg
11:41 pm Story #3706 (Resolved): [SDKs] Remove fallback-to-keep warning from python SDK if block hash has ...
Background: Crunch job tasks can use Keep as a cache for manifest fragments, which crunch-job retrieves at the end of... Tom Clegg
11:07 pm Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Tom Clegg wrote:
> At some point (not right now) I think we can rename the PullList to something more like todo_list...
Tim Pierce
09:26 pm Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
New revision at commit:20fec88
Added logging for both successful and unsuccessful pull requests.
Renamed replic...
Tim Pierce
08:47 pm Story #3414 (In Progress): [Keep] Keep Server accepts list of blocks to pull from other servers
Tom Clegg
05:55 pm Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Priorities/requests:
* In handlers:
** Log when a "pull" request is received (at the top of PullHandler).
** If ...
Tom Clegg
05:09 pm Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Tim Pierce wrote:
> # All other servers have deleted the unreplicated blocks by the time keepstore gets around to th...
Tom Clegg
01:59 pm Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Tim Pierce wrote:
> In order for one keepstore to pull blocks from another keepstore, it will need to sign the locat...
Tom Clegg
09:31 pm Bug #3704 (In Progress): [Workbench] Server-side search fails choosing pipeline inputs with searc...
Tom Clegg
04:42 pm Bug #3704 (Resolved): [Workbench] Server-side search fails choosing pipeline inputs with search t...
Part one (fixed): In current master Workbench, when I try to select inputs for a pipeline that has search terms for i... Brett Smith
09:18 pm Revision 20fec88c (arvados): 3414: rename replicator to pull_list
Renamed replicator.Replicator to pull_list.Manager. Tim Pierce
08:50 pm Revision 6c29e762 (arvados): 3414: update for code review
Added logging for pull lists. Unsuccessful pull lists are logged with
an error, successful ones are logged with the ...
Tim Pierce
08:41 pm Task #3697 (In Progress): Review 3414-keep-pull-handler
Tom Clegg
03:18 pm Task #3697 (Resolved): Review 3414-keep-pull-handler
Tim Pierce
08:40 pm Task #3569 (Resolved): Review 3354
Tom Clegg
08:38 pm Story #3705 (Resolved): [Keep] Generalize PullList module to BlockWorkList
The lists of "blocks to delete" and "blocks to pull from other keepstores" should be maintained in a BlockWorkList ty... Tom Clegg
08:30 pm Story #3354 (Resolved): [Workbench] Render description attributes as textile
Applied in changeset arvados|commit:63330000144108862a4e2b02a7a8fa124d01163e. Anonymous
08:26 pm Revision 63330000 (arvados): Merge branch '3354-render-textile' closes #3354
Tom Clegg
08:13 pm Revision 34173202 (arvados): 3354: Merge branch 'master' into 3354-render-textile
Conflicts:
apps/workbench/app/assets/stylesheets/application.css.scss
apps/workbench/app/helpers/application_helper...
Tom Clegg
08:10 pm Bug #3627 (Resolved): [Workbench] Projects that are writable, but have root owner != current_user...
Applied in changeset arvados|commit:a942e37250873d383bd885ba0dba70c63b3c073d. Anonymous
11:46 am Bug #3627: [Workbench] Projects that are writable, but have root owner != current_user, cannot be...
Looks good to me too. Peter Amstutz
07:51 pm Revision ff742a82 (arvados): Fix label for API endpoint. Re-order fields. refs #3112
Tom Clegg
07:51 pm Revision a5819ec1 (arvados): Run the task setup script inside the container (if any), instead of
running setup on the host, using bind-mount for CRUNCH_SRC, and
assuming other directories have already been set up i...
Tom Clegg
07:51 pm Revision 02cbe072 (arvados): Ensure source_version is a string, even when it consists entirely of...
Tom Clegg
07:51 pm Revision a942e372 (arvados): Merge branch '3627-selectable-projects' closes #3627
Tom Clegg
07:41 pm Task #3670 (Resolved): Review 3627-selectable-projects
Tom Clegg
05:12 pm Revision d4c8504d (arvados): 3342: Fixing outputs
Peter Amstutz
04:53 pm Revision 2ad96e9d (arvados): 3413: add TrashHandler, package trash
Added a trash collector interface for handling the trash list from Data
Manager.
"PUT /trash" requests are routed to...
Tim Pierce
04:26 pm Support #3702 (Resolved): [Support] Fix bugs and write tests (the first half of the sprint)
This is a bucket for fixing bugs encountered by users during the sprint. Here, "fixing" includes:
* Troubleshooting ...
Tom Clegg
04:22 pm Story #3701 (Closed): [Workbench] Show current user's compute node usage over time
Tom Clegg
04:16 pm Task #3679 (In Progress): Implement TrashHandler
Tim Pierce
03:53 pm Bug #3147 (In Progress): [SDKs] Python clients should automatically retry failed API and Keep req...
Brett Smith
11:35 am Bug #3147 (Resolved): [SDKs] Python clients should automatically retry failed API and Keep reques...
Applied in changeset arvados|commit:728ee9775de422840b81827c71c7b515708620a3. Brett Smith
09:36 am Bug #3147: [SDKs] Python clients should automatically retry failed API and Keep requests (includi...
LGTM, thanks. Good to merge. Thanks for adding the 403 as an open question -- this doesn't seem urgent enough to spen... Tim Pierce
03:47 pm Revision 463aed42 (arvados): 3342: Removing remaining traces of output_is_persistent. Added code in
arv-run-pipeline-instance to create collections owned by appropriate project. Peter Amstutz
03:33 pm Revision b15e80cd (arvados): refs #3620
Merge branch '3620-admin-only-gear-menu' Radhika Chippada
03:29 pm Story #3699 (Resolved): [SDKs] Copy a pipeline instance, along with its input and output data, fr...
Use case: user can copy a pipeline instance between Arvados instances, in order to rerun a pipeline on another cluste... Tom Clegg
03:28 pm Revision 71109ef9 (arvados): 3620: correct indentation when current user is available
Radhika Chippada
03:20 pm Bug #3698 (Resolved): [Crunch] Pipeline runner should detect when "output_of" refers to a non-exi...
Peter Amstutz
03:19 pm Task #3650 (In Progress): Implement PullHandler
Tim Pierce
03:17 pm Revision b185fc94 (arvados): 3414: adding PullHandler and Replicator
Added PullHandler and a "replicator" package to handle "PUT /pull" requests.
PUT /pull requests are routed to PullHa...
Tim Pierce
02:58 pm Story #3696 (Closed): [Workbench] Improve log viewer to more effectively expose relevant informat...
When reviewing why a job has failed I find myself wading through a lot of text to get at the single line of relevance... Abram Connelly
02:50 pm Task #3690 (Resolved): Review 3642-search-for-active-only
Radhika Chippada
02:50 pm Story #3620 (Resolved): [Workbench] Display system menu (gear menu) only to admin users.
Applied in changeset arvados|commit:6e39e6e9ce10895a5405c90a0b61290ab507d16d. Radhika Chippada
02:25 pm Story #3620: [Workbench] Display system menu (gear menu) only to admin users.
Reviewing commit:3c12b61
I know this bug existed before your branch, but the diff made me notice it: list items th...
Brett Smith
02:50 pm Bug #3642 (Resolved): [Workbench] Search box should not be displayed in top-nav for non-active us...
Applied in changeset arvados|commit:9cc77c22d33ced67d04148493616320e7665a8c4. Radhika Chippada
02:36 pm Bug #3642: [Workbench] Search box should not be displayed in top-nav for non-active users.
commit:5a80356 looks good to merge. Thanks. Brett Smith
02:50 pm Task #3689 (Resolved): Review 3620-admin-only-gear-menu
Radhika Chippada
02:47 pm Revision 6e39e6e9 (arvados): closes #3620
Merge branch '3620-admin-only-gear-menu' Radhika Chippada
02:45 pm Revision 006e0adf (arvados): Merge branch 'master' into 3620-admin-only-gear-menu
Radhika Chippada
02:45 pm Revision 9cc77c22 (arvados): closes #3642
Merge branch '3642-search-for-active-only' Radhika Chippada
02:43 pm Revision 38770e0e (arvados): Enhanced run-tests.sh command line supporting choosing specific Pyth...
tests, and re-using temp directories. no issue # Peter Amstutz
02:43 pm Revision 38770e0e (arvados-dev): Enhanced run-tests.sh command line supporting choosing specific ...
tests, and re-using temp directories. no issue # Peter Amstutz
02:42 pm Revision 02d48a84 (arvados): 3620: change menu item role from presentation to menuitem for clicka...
Radhika Chippada
02:07 pm Revision 12d2dafa (arvados): 3342: Migration to remove obsolete output_is_persistent column from ...
Peter Amstutz
02:05 pm Story #3112 (Resolved): [Workbench] "Report bug on this page" and "Show version detail" buttons o...
Applied in changeset arvados|commit:183bdcd6c6b2c54f8f2558fbdb6bec974c1d16e4. Radhika Chippada
01:51 pm Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
Just one last thing: the 404 page template only sets @req_item_plain_text@ if there's an API error. This makes the e... Brett Smith
12:13 pm Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
Brett: addressed all your comments. Especially, thanks for testing that reload issue, which I should have fixed after... Radhika Chippada
11:10 am Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
Radhika Chippada, quoting Brett Smith, wrote:
> * General style
> ** There are several references like @Rails.confi...
Brett Smith
02:04 pm Revision 5a80356d (arvados): Merge branch 'master' into 3642-search-for-active-only
Radhika Chippada
02:00 pm Task #3608 (Resolved): Review branch: 3112-report-bug
Radhika Chippada
12:13 pm Task #3608: Review branch: 3112-report-bug
Addressed all your comments. Please take another look, if you like. Thanks. Radhika Chippada
02:00 pm Revision bd1f0b63 (arvados): Merge branch 'master' into 3620-admin-only-gear-menu
Radhika Chippada
01:57 pm Revision 183bdcd6 (arvados): closes #3112
Merge branch '3112-report-bug' Radhika Chippada
01:57 pm Revision bb564d63 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
01:56 pm Revision 740137a2 (arvados): 3112: 404 error page default message while reporting issue
Radhika Chippada
01:51 pm Revision 4d14e702 (arvados): Fixed missing import in robust_put. no issue #
Peter Amstutz
01:20 pm Revision 4fe1bc8c (arvados): 3112: login_tests works with javascript driver
Radhika Chippada
01:14 pm Story #3695 (New): [Documentation] Replace direct job submission examples with single-component p...
Tom Clegg
01:10 pm Revision 59e5d36f (arvados): 3112: still the login_tests fails when ran in the entire suite
Radhika Chippada
12:30 pm Revision 03002e6c (arvados): 3112: removed rack_test driver and added selenium driver. still the ...
Radhika Chippada
12:10 pm Revision df8e6b95 (arvados): 3112: add scrollbar to the report issue popup
Radhika Chippada
11:42 am Revision 416d8810 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
11:40 am Revision 536713e6 (arvados): 3112: skip filters in actions controller, instead of application con...
Radhika Chippada
11:40 am Bug #3136 (Resolved): [Crunch] Job state is stale in Workbench pipeline instance views, if the jo...
Applied in changeset arvados|commit:a17b176ea55dc3820ef1bde4b99cf33c628ffbbe. Anonymous
11:35 am Bug #3136 (New): [Crunch] Job state is stale in Workbench pipeline instance views, if the job's s...
commit:c1b0e1bd832d3c2c96e60334b96f3b6989ecd1b6 looks good. Thanks. Brett Smith
11:39 am Task #3667 (Resolved): Review 3660-project-editable
Peter Amstutz
11:36 am Task #3676 (Resolved): Review 3136-stale-pipeline-instance-display
Peter Amstutz
11:36 am Revision a17b176e (arvados): Merge branch '3136-stale-pipeline-instance-display' closes #3136
Peter Amstutz
11:32 am Revision b56386aa (arvados): 3112: no need to reload after sending report.
Radhika Chippada
11:32 am Bug #3649 (Rejected): [Crunch] 'Pipeline_instances' page shows job running when it has failed
Peter Amstutz
11:32 am Revision 728ee977 (arvados): Merge branch '3147-pysdk-retries'
Closes #3147. Brett Smith
11:32 am Revision aa1d003d (arvados): 3147: Fix unwanted integer division in KeepClient logs.
Brett Smith
11:32 am Revision dccec0cc (arvados): 3147: Remove old Keep signing support from Python SDK.
Per Tom. Brett Smith
11:32 am Revision 440d863f (arvados): 3147: Move fake Python HTTP response generation to arvados_testutil.
Other tests can use this functionality. Brett Smith
11:32 am Revision adbeb30c (arvados): 3147: Add RetryLoop to the Python SDK.
This provides a general-purpose mechanism for us to retry all kinds of
operations.
Brett Smith
11:32 am Revision 7f5a0caf (arvados): 3147: Add check_http_response_success to Python SDK.
Other parts of the SDK need to end loops based on the result of an
HTTP request. This function puts that logic in on...
Brett Smith
11:32 am Revision 5a043a14 (arvados): 3147: Add retry support to Python SDK's KeepClient.
Brett Smith
11:31 am Task #3327 (Resolved): Fix workbench display to only use the actual jobs and ignore denormalized ...
Peter Amstutz
11:28 am Task #3632 (Resolved): Review 3036-collection-uuids
Peter Amstutz
11:28 am Bug #3077 (Rejected): Add migration to convert remaining non-root collection owner_uuids to name ...
Obsoleted by #3036 Peter Amstutz
11:25 am Revision c1b0e1bd (arvados): 3136: Use map to correctly get the list of uuids. Check that there ...
record before trying to use it. Peter Amstutz
11:24 am Revision 8cba6b1d (arvados): Fix test. refs #3149
Tom Clegg
11:20 am Story #3149 (Resolved): [Workbench] Workbench infinite scroll and filter system should do filteri...
Applied in changeset arvados|commit:e21b910a307440a9d34e595673539a6e7d708e55. Anonymous
11:17 am Revision 58b6e688 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
11:14 am Revision d5835c04 (arvados): Fix migration and api templates that rely on changes that did not en...
Tom Clegg
11:00 am Revision e21b910a (arvados): Merge branch '3149-server-side-search' closes #3149
Tom Clegg
11:00 am Revision f12350f2 (arvados): 3149: Merge branch 'master' into 3149-server-side-search
Tom Clegg
10:59 am Revision d1d0fd3c (arvados): Set up arvados env vars when running arv-normalize. No issue #
Tom Clegg
10:59 am Task #3675 (Resolved): Review 3149-server-side-search
Tom Clegg
10:57 am Bug #3342 (In Progress): [Crunch] Pipeline outputs not added to current project.
Peter Amstutz
10:50 am Story #3036 (Resolved): [API] Use regular uuids instead of content hashes to identify collections
Applied in changeset arvados|commit:61cd57499905e8e8cca07c774d1bf8c6bfa069a7. Anonymous
10:45 am Revision 61cd5749 (arvados): Merge branch '3036-collection-uuids' closes #3036
Peter Amstutz
10:43 am Revision 41a6554c (arvados): Merge branch 'master' into 3036-collection-uuids
Conflicts:
services/api/test/fixtures/groups.yml
Peter Amstutz
09:59 am Task #3580 (Resolved): Update tests
Peter Amstutz
09:36 am Task #3657 (Resolved): Review 3147-pysdk-retries-wip
Tim Pierce
08:48 am Revision f1886a6d (arvados): 3036: Fix merge conflicts. One python sdk test still fails.
Peter Amstutz
01:41 am Revision 79577fec (arvados): Move styles out of tab partial. No issue #
Tom Clegg
01:29 am Revision 7e891a82 (arvados): Propagate query params to tab panes. No issue #
Tom Clegg
12:20 am Revision 70e7bc03 (arvados): Remove uuid-guessing code from "combine selected files". refs #3504
Tom Clegg

08/25/2014

11:51 pm Revision 37d93ae5 (arvados): Do not blow up in install stage when TASK_WORK is not set. No issue #
Tom Clegg
11:26 pm Revision 376149e7 (arvados): Do not blow up when tmp directory already exists. No issue #
Tom Clegg
11:16 pm Revision 82a77663 (arvados): Merge branch '3112-report-bug' into 3642-search-for-active-only
Radhika Chippada
11:16 pm Revision 3c12b612 (arvados): Merge branch '3112-report-bug' into 3620-admin-only-gear-menu
Radhika Chippada
11:12 pm Revision ea4e4e5e (arvados): 3112: alert left justification
Radhika Chippada
11:09 pm Revision 1da134ab (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
11:09 pm Story #3149: [Workbench] Workbench infinite scroll and filter system should do filtering on serve...
Peter Amstutz wrote:
> 3149-filter-any:
>
> * Documentation update adds @any@ as an example column but doesn't ex...
Tom Clegg
11:08 pm Story #3149: [Workbench] Workbench infinite scroll and filter system should do filtering on serve...
Peter Amstutz wrote:
> 3149-server-side-search:
>
> Usability notes about search. I realize not all of these (or...
Tom Clegg
04:07 pm Story #3149: [Workbench] Workbench infinite scroll and filter system should do filtering on serve...
3149-server-side-search:
Usability notes about search. I realize not all of these (or even most of them) are dire...
Peter Amstutz
02:45 pm Story #3149: [Workbench] Workbench infinite scroll and filter system should do filtering on serve...
3149-filter-any:
* Documentation update adds @any@ as an example column but doesn't explain that it has a special ...
Peter Amstutz
10:29 pm Revision 80f6898b (arvados): 3149: Clarify comments. Stick with a-b-c data keys where possible;
when not possible, explain why not. Tom Clegg
09:54 pm Task #3674 (Resolved): Review 3149-filter-any (improve filter support in API)
Tom Clegg
11:41 am Task #3674 (In Progress): Review 3149-filter-any (improve filter support in API)
Peter Amstutz
09:50 pm Revision eba617ba (arvados): Merge branch '3149-filter-any' refs #3149
Tom Clegg
09:49 pm Bug #3692 (Resolved): [API] Eventbus filters parameter should use implicit AND (like REST filters...
Tom Clegg
09:48 pm Revision a8247beb (arvados): 3149: Explain what "any" does as a filter attribute.
Tom Clegg
09:33 pm Revision 015be614 (arvados): Fix test fixtures breaking Workbench tests. refs #3171
Tom Clegg
09:26 pm Revision 8d9ccb40 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
09:09 pm Bug #3147: [SDKs] Python clients should automatically retry failed API and Keep requests (includi...
Tim Pierce wrote:
> Two questions, one minor, one possibly significant:
>
> * sdk/python/arvados/keep.py
> ** Th...
Brett Smith
05:48 pm Bug #3147: [SDKs] Python clients should automatically retry failed API and Keep requests (includi...
Review at commit:dca92e4
The code review advice was really helpful here. Thanks for the summary. The testing here...
Tim Pierce
08:59 pm Revision f09b538f (arvados): Do not blow up when stdout!=subprocess.PIPE. no issue #
Tom Clegg
08:58 pm Revision a46654d0 (arvados): 3147: Fix unwanted integer division in KeepClient logs.
Brett Smith
08:58 pm Revision 5d1c61fc (arvados): 3147: Fixup KeepClient comments.
Per review. Brett Smith
08:45 pm Bug #3660 (Resolved): [Workbench] Project action buttons (add subproject, add data) should appear...
Applied in changeset arvados|commit:e4382e25d68a70a107baeb257e1915972759334c. Anonymous
11:34 am Bug #3660: [Workbench] Project action buttons (add subproject, add data) should appear when proje...
The first part of this comment is directly contradicted by the last part of this comment:... Peter Amstutz
08:41 pm Revision e4382e25 (arvados): Merge branch '3660-project-editable' closes #3660
Tom Clegg
08:41 pm Revision 6f86d636 (arvados): 3660: Clarify self-contradicting comment.
Tom Clegg
08:40 pm Story #3171 (Resolved): [API] Modify permission model to allow users to see a subset of other use...
Applied in changeset arvados|commit:437725d13f8775b29ad3e279a07b0bd4b7f8d098. Anonymous
01:14 pm Story #3171: [API] Modify permission model to allow users to see a subset of other users, accordi...
(I should update http://doc.arvados.org/api/permission-model.html) Tom Clegg
10:46 am Story #3171: [API] Modify permission model to allow users to see a subset of other users, accordi...
This is exactly why I wrote https://arvados.org/projects/arvados/wiki/Groups_Projects_Ownership_and_Permissions_Speci... Peter Amstutz
12:00 am Story #3171: [API] Modify permission model to allow users to see a subset of other users, accordi...
!Screenshot_from_2014-08-24_23_59_08.png! Tom Clegg
08:35 pm Task #3665 (Resolved): Review 3171-admin-groups
Tom Clegg
10:46 am Task #3665 (In Progress): Review 3171-admin-groups
Peter Amstutz
08:34 pm Revision 5596c93b (arvados): Update Gemfile.lock. refs #3405
Tom Clegg
08:24 pm Revision 437725d1 (arvados): Merge branch '3171-admin-groups' closes #3171
Tom Clegg
08:24 pm Revision 3c54f04e (arvados): Instead of munging TASK_WORK var, mkdir -p it (and therefore JOB_WORK)
in setup script.
Without this, scripts that write to arvados.current_job().tmpdir
(i.e., JOB_WORK) fail.
No issue #
Tom Clegg
07:31 pm Revision ebf95312 (arvados): Merge branch '3112-report-bug' into 3642-search-for-active-only
Radhika Chippada
07:30 pm Revision 4194cec3 (arvados): 3620: minor test update
Radhika Chippada
07:21 pm Revision e274983c (arvados): Merge branch '3112-report-bug' into 3620-admin-only-gear-menu
Radhika Chippada
07:19 pm Revision 9115746f (arvados): 3112: move manage account testing into its own file
Radhika Chippada
06:40 pm Bug #3691 (New): [Workbench] Suppress "ajax failed" error messages when ajax fails due to browser...
In fail callbacks, check @jqxhr.readyState@ and @status == 'abort'@ to determine whether the request was terminated b... Tom Clegg
05:44 pm Task #3690 (Resolved): Review 3642-search-for-active-only
Please compare against branch 3112-report-bug (in case you review it before I merge that branch into master). Thanks. Radhika Chippada
05:43 pm Task #3689 (Resolved): Review 3620-admin-only-gear-menu
Please compare against branch 3112-report-bug branch (in case you review it before I merge that branch into master). ... Radhika Chippada
05:37 pm Task #3608: Review branch: 3112-report-bug
Brett, if you want to take another look, all updated code is pushed to 3112 branch. Thanks. Radhika Chippada
05:35 pm Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
Brett, addressed pretty much all of your comments. Please see your feedback (#14) for my responses inline for each en... Radhika Chippada
04:03 pm Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
Reviewing commit:d0c85cb
* General style
** There are several references like @Rails.configuration.varname ? Rail...
Brett Smith
05:33 pm Revision f3b66f2d (arvados): Merge branch '3112-report-bug' into 3642-search-for-active-only
Radhika Chippada
05:32 pm Revision 29b8c0c6 (arvados): Merge branch '3112-report-bug' into 3620-admin-only-gear-menu
Radhika Chippada
05:20 pm Revision 7c91d696 (arvados): 3112: update issue report routes config and some other minor test up...
Radhika Chippada
04:53 pm Revision bd9ea502 (arvados): Do not blow up with pipeline has a plain value in a script_parameter...
Tom Clegg
04:52 pm Revision 59e8a18a (arvados): 3112: fix indentation
Radhika Chippada
04:51 pm Story #3036: [API] Use regular uuids instead of content hashes to identify collections
Peter Amstutz wrote:
> > * There's another story on this sprint (#2875) that adds description to PipelineInstance. H...
Tom Clegg
04:43 pm Story #3036: [API] Use regular uuids instead of content hashes to identify collections
I'm thinking about backing out the owner/name uniqueness for jobs and pipeline instances. It seems typical that the ... Peter Amstutz
04:37 pm Story #3036 (In Progress): [API] Use regular uuids instead of content hashes to identify collections
Peter Amstutz
04:43 pm Revision 3a435857 (arvados): 3112: add some space below the submit button and alert panel
Radhika Chippada
04:37 pm Bug #3136 (In Progress): [Crunch] Job state is stale in Workbench pipeline instance views, if the...
Peter Amstutz
12:34 pm Bug #3136: [Crunch] Job state is stale in Workbench pipeline instance views, if the job's state c...
Reviewing the quick Workbench fix at commit:aa0ae05... Brett Smith
04:29 pm Revision ff2e2d7b (arvados): Merge branch 'master' into 3036-collection-uuids
Conflicts:
sdk/python/arvados/commands/put.py
services/api/app/controllers/application_controller.rb
services/api/...
Peter Amstutz
04:25 pm Revision e8c9386f (arvados): 3112: minor cleanup
Radhika Chippada
04:10 pm Story #3504 (Resolved): [SDKs] Clients are compatible with #3036
Peter Amstutz
04:10 pm Task #3653 (Resolved): Review 3171-group-membership
Peter Amstutz
10:46 am Task #3653 (In Progress): Review 3171-group-membership
Peter Amstutz
04:07 pm Task #3675 (In Progress): Review 3149-server-side-search
Peter Amstutz
04:05 pm Bug #3688 (Closed): [API] User should be able to delete a project even though dependent logs exist
... Jonathan Sheffi
03:55 pm Feature #3686 (Resolved): [Workbench] Provide a sharing tab for repositories similar to setting u...
Peter Amstutz
02:41 pm Bug #3642 (In Progress): [Workbench] Search box should not be displayed in top-nav for non-active...
Radhika Chippada
02:37 pm Revision 4dbe0b01 (arvados): Merge branch '3112-report-bug' into 3620-admin-only-gear-menu
Radhika Chippada
02:37 pm Revision 0149f366 (arvados): Merge branch '3112-report-bug' into 3642-search-for-active-only
Radhika Chippada
02:36 pm Revision c6378b0e (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
02:32 pm Revision f792be9b (arvados): 3642: display search box in topnav only to active users
Radhika Chippada
02:16 pm Revision da34478c (arvados): Merge branch '3171-group-membership' refs #3171
Tom Clegg
02:15 pm Revision 7c2d7b25 (arvados): 3171: Merge branch 'master' into 3171-group-membership
Conflicts:
services/api/test/fixtures/links.yml
Tom Clegg
02:12 pm Revision 8516f7a5 (arvados): 3171: Fix wording, update docs.
Tom Clegg
02:01 pm Story #3620 (In Progress): [Workbench] Display system menu (gear menu) only to admin users.
Radhika Chippada
01:56 pm Revision d8b8e96f (arvados): 3620: display gear menu to admin users only. update the layout tests...
Radhika Chippada
01:35 pm Feature #3448 (Resolved): [Keep] storage server records (and reports in index) the timestamp of t...
Applied in changeset arvados|commit:94b5a59631f22e4e57561a6244c24b93db77f589. Tim Pierce
01:27 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
LGTM, please merge.
Tim Pierce wrote:
> > Noticed this seems odd in the test case that returns 200 despite not de...
Tom Clegg
11:00 am Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
Updates at commit:cca1529:
Tom Clegg wrote:
>
> (I notice you used "e" instead of "err" here. Is there a reason...
Tim Pierce
01:33 pm Task #3683 (Resolved): Review 3448-keep-put-timestamps
Tim Pierce
12:00 pm Task #3683 (In Progress): Review 3448-keep-put-timestamps
Tom Clegg
12:00 pm Task #3683 (Resolved): Review 3448-keep-put-timestamps
Tom Clegg
01:32 pm Task #3647 (Resolved): Add timestamp support to PUT and DELETE
Tim Pierce
01:31 pm Revision 94b5a596 (arvados): Merge branch '3448-keep-put-timestamps'
Closes #3448. Tim Pierce
01:29 pm Revision 32e4350b (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
12:09 pm Revision b67cdc3c (arvados): 3112: minor update in application layout test
Radhika Chippada
12:04 pm Revision ffabe045 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
12:02 pm Revision 4265203e (arvados): 3112: Move profile testing out of application_layout_test.rb into it...
Radhika Chippada
12:01 pm Task #3676 (In Progress): Review 3136-stale-pipeline-instance-display
Tom Clegg
09:24 am Task #3676 (Resolved): Review 3136-stale-pipeline-instance-display
Peter Amstutz
11:59 am Task #3657 (In Progress): Review 3147-pysdk-retries-wip
Tom Clegg
11:40 am Task #3682 (Resolved): Implement TrashCollector
The Keepstore TrashCollector is a module which recycles trashable blocks asynchronously. The interface is:
The Tra...
Tim Pierce
11:39 am Revision 14f130e6 (arvados): Do not blow up in crunch-dispatch.rb: do not pass --jobs and --pipel...
arguments to Rails.
no issue #
Ward Vandewege
11:29 am Revision dac7b05f (arvados): Do not blow up in crunch-dispatch: fix syntax error. Ouch.
no issue # Ward Vandewege
11:25 am Task #3681 (Resolved): Truncate project description display in dashboard at the first textile lin...
Radhika Chippada
11:24 am Task #3680 (Resolved): Update project description display in dashboard to display textile formatt...
Once #3354 branch is merged, the project description in the dashboard should display the formatted description rather... Radhika Chippada
11:21 am Task #3679 (Resolved): Implement TrashHandler
A "PUT /trash" HTTP request should be routed to a TrashHandler:
* The TrashHandler should make sure the request co...
Tim Pierce
11:13 am Revision 245a1c2e (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
10:52 am Story #3354: [Workbench] Render description attributes as textile
Added a few integration tests to test the textile description for projects. Radhika Chippada
10:47 am Task #3667 (In Progress): Review 3660-project-editable
Peter Amstutz
10:40 am Revision cca1529c (arvados): 3448: update tests with "untouchable" volumes
Added a "Touchable" flag to MockVolume, so that we can test that
PutBlock does the right thing when Touch fails. Pre...
Tim Pierce
10:40 am Revision c28604e8 (arvados): 3354: add integration tests verify textile descriptions for projects
Radhika Chippada
10:16 am Revision 952db4ab (arvados): Merge branch 'multiple-dispatch' no issue #
Tom Clegg
10:16 am Task #3678 (Resolved): Review multiple-dispatch
Ward Vandewege
10:05 am Task #3678 (Resolved): Review multiple-dispatch
Tom Clegg
10:05 am Revision c685ee1c (arvados): crunch-dispatch can run --jobs, --pipelines, or both.
Tom Clegg
09:58 am Bug #3627: [Workbench] Projects that are writable, but have root owner != current_user, cannot be...
UI changes in this branch LGTM, but since it depends on 3660 I'm going to wait until that is merged to ok this branch. Ward Vandewege
09:58 am Task #3670 (In Progress): Review 3627-selectable-projects
Ward Vandewege
09:23 am Task #3327 (In Progress): Fix workbench display to only use the actual jobs and ignore denormaliz...
Peter Amstutz
09:23 am Revision aa0ae05d (arvados): 3136: Fetch actual job objects for use in rendering pipeline jobs.
Peter Amstutz
08:57 am Bug #3649: [Crunch] 'Pipeline_instances' page shows job running when it has failed
Duplicate of #3136 Peter Amstutz
08:51 am Revision a0b0947b (arvados): With new apiserver, after upload, arv-put prints portable data hash ...
collection uuid for compatibility with crunch. refs #3504 Peter Amstutz

08/24/2014

11:43 pm Revision 8dcb4daa (arvados): 3149: Propagate filters from remote->dialog->infinite. Fix tests.
Tom Clegg
10:46 pm Story #3149 (In Progress): [Workbench] Workbench infinite scroll and filter system should do filt...
Tom Clegg
10:43 pm Task #3675 (Resolved): Review 3149-server-side-search
Depends on 3149-filter-any branch. Tom Clegg
10:42 pm Task #3674 (Resolved): Review 3149-filter-any (improve filter support in API)
Tom Clegg
10:40 pm Revision 1a1abfc1 (arvados): 3149: Do not blow up on small devices/windows.
Tom Clegg
10:24 pm Revision d12257e9 (arvados): 3149: Fix infinite scroll not updating after retry/refresh.
Tom Clegg
10:24 pm Revision b04f78ea (arvados): 3149: Do not preload results in search dialog. Let infinite scroll d...
Tom Clegg
10:24 pm Revision c5f356f0 (arvados): 3149: Fix user-controlled filters overwriting page-controlled filters.
Tom Clegg
09:54 pm Revision cce04610 (arvados): 3149: Let Workbench server do all the filtering where infinite-scrol...
Tom Clegg
09:54 pm Revision c3371825 (arvados): 3149: Untabify.
Tom Clegg
09:54 pm Revision 846abbca (arvados): 3149: Propagate search string to Workbench server using filters param.
Tom Clegg
09:50 pm Revision 482e452a (arvados): 3149: Fix operator precedence in SQL statements built from record_fi...
Tom Clegg
09:36 pm Revision dca0abdb (arvados): 3149: Support "ilike" operator in record_filters.
Tom Clegg
08:32 pm Story #3354: [Workbench] Render description attributes as textile
A few of my observations as I experimented with this branch (in preparation to address Tom's request to add a test or... Radhika Chippada
01:24 pm Story #3354: [Workbench] Render description attributes as textile
I believe I've fixed the bug you identified Tom, and pushed the changes but, frustratingly, I am having trouble getti... Phil Hodgson
08:28 pm Task #3673 (Resolved): Clear results and refresh from server if search query is dirty and idle fo...
Tom Clegg
06:49 pm Task #3673 (In Progress): Clear results and refresh from server if search query is dirty and idle...
Tom Clegg
05:19 pm Task #3673 (Resolved): Clear results and refresh from server if search query is dirty and idle fo...
Tom Clegg
08:24 pm Revision 4c8a8c8d (arvados): 3149: Support "any" and array in filter "column" element.
Tom Clegg
06:55 pm Revision d0c85cb8 (arvados): Merge branch 'master' into 3112-report-bug
Conflicts:
services/api/config/application.default.yml
Radhika Chippada
06:45 pm Task #3672 (Resolved): Propagate search query from workbench to api server
Tom Clegg
05:40 pm Task #3672 (In Progress): Propagate search query from workbench to api server
Tom Clegg
05:18 pm Task #3672 (Resolved): Propagate search query from workbench to api server
Tom Clegg
06:30 pm Story #3153 (Resolved): [API] Configuration option to automatically set up users (VM, repository,...
Applied in changeset arvados|commit:d36525cf0f67b35e9f59a3481a3739f9ebffae29. Radhika Chippada
04:28 pm Story #3153: [API] Configuration option to automatically set up users (VM, repository, invite)
Looks good, please merge.
Thanks!
Tom Clegg
06:07 pm Revision 1ee96f5e (arvados): closes #3153
Merge branch '3153-auto-setup-user' Radhika Chippada
06:06 pm Revision df706aa3 (arvados): 3153: update the newly added vm login link to not point to the "acti...
Radhika Chippada
05:40 pm Task #3671 (Resolved): Propagate search query to workbench when requesting rows in infinite scroll
Tom Clegg
05:19 pm Task #3671 (In Progress): Propagate search query to workbench when requesting rows in infinite sc...
Tom Clegg
05:17 pm Task #3671 (Resolved): Propagate search query to workbench when requesting rows in infinite scroll
Tom Clegg
05:15 pm Revision d36525cf (arvados): closes #3153
Merge branch '3153-auto-setup-user' Radhika Chippada
05:14 pm Revision 2ba51ef3 (arvados): Merge branch 'master' into 3153-auto-setup-user
Radhika Chippada
04:28 pm Task #3643 (Resolved): Review branch: 3153-auto-setup-user
Tom Clegg
04:24 pm Task #3670 (Resolved): Review 3627-selectable-projects
Note: reported bugfix is actually in 3660. Tom Clegg
04:24 pm Task #3669 (Resolved): Grey out unselectable projects in the chooser
Tom Clegg
02:57 pm Task #3669 (In Progress): Grey out unselectable projects in the chooser
Tom Clegg
04:24 pm Revision d95bc29a (arvados): 3627: Add hover highlight to Home project on dashboard.
Tom Clegg
04:19 pm Revision f45666be (arvados): 3627: Really make Home project selectable in project chooser.
Tom Clegg
04:11 pm Revision 12d4dfd4 (arvados): 3627: More consistent icons/headings in projects dropdown and chooser.
Tom Clegg
04:10 pm Revision 0b7ca85a (arvados): 3627: Grey out unselectable projects in chooser.
Tom Clegg
04:05 pm Revision a77dee1d (arvados): Fix user agreements page when no signatures needed. Add tests. No is...
Tom Clegg
02:57 pm Task #3575 (Resolved): [Workbench] "Home" project should have hover highlight like other projects
Tom Clegg
02:57 pm Revision 4dc0af33 (arvados): 3627: "My Projects" is now called "Home" and is always selectable in...
Tom Clegg
02:38 pm Bug #3627 (In Progress): [Workbench] Projects that are writable, but have root owner != current_u...
Tom Clegg
02:35 pm Revision 3c013388 (arvados): Fix disabled Continue button on user agreements page. No issue #
Tom Clegg
01:08 pm Revision 59b7bfcd (arvados): 3354: ordinary Textile link markup was no longer working - fixed by ...
Phil Hodgson
01:07 pm Revision 179ba8f1 (arvados): 3354: Rename render_content_from_database helper to render_markup, a...
Phil Hodgson
11:49 am Revision dca92e41 (arvados): 3147: Fixup KeepClient's RetryLoop use.
Switch to RetryLoop, and use the loop end logic better. Brett Smith
11:43 am Revision 4f749c94 (arvados): 3147: Fixup RetryLoop.
Having HTTPRetryLoop separate is unnecessary. Brett Smith
08:31 am Revision 661d0cfa (arvados): 3112: trailing white space
Radhika Chippada
08:11 am Revision 8a10f2ec (arvados): 3112: report issue success event handling working in 404 error page.
Radhika Chippada
12:12 am Revision 8cc7bf36 (arvados): 3112: update report_issue.js to confine event handling to report iss...
Radhika Chippada

08/23/2014

09:20 pm Task #3669 (Resolved): Grey out unselectable projects in the chooser
Tom Clegg
09:20 pm Task #3668 (Resolved): Confirm fixed by 3660 branch
Tom Clegg
09:20 pm Task #3668 (Resolved): Confirm fixed by 3660 branch
Tom Clegg
09:18 pm Task #3667 (Resolved): Review 3660-project-editable
Tom Clegg
09:18 pm Task #3666 (Resolved): Fix "is it editable?" detection for top buttons on project page
Tom Clegg
08:04 pm Task #3666 (In Progress): Fix "is it editable?" detection for top buttons on project page
Tom Clegg
08:04 pm Task #3666 (Resolved): Fix "is it editable?" detection for top buttons on project page
Tom Clegg
09:14 pm Revision ef3a7bc7 (arvados): 3660: Show add/run buttons if project is writable.
Hide move/delete buttons if move is impossible. Tom Clegg
08:03 pm Task #3565 (Resolved): Implement admin "add user to group" and "create/rename groups" interface
Tom Clegg
05:08 pm Task #3565 (In Progress): Implement admin "add user to group" and "create/rename groups" interface
Tom Clegg
08:03 pm Task #3665 (Resolved): Review 3171-admin-groups
Tom Clegg
08:02 pm Bug #3660 (In Progress): [Workbench] Project action buttons (add subproject, add data) should app...
Tom Clegg
08:00 pm Revision 050e18ef (arvados): 3171: Add administrator UI for toggling user<->role permissions.
Tom Clegg
06:22 pm Revision 12dd8631 (arvados): Merge branch 'master' into 3153-auto-setup-user
Radhika Chippada
05:06 pm Task #3564 (Resolved): Design appropriate "join group" interface
Tom Clegg
04:13 pm Bug #3663 (Resolved): [SDKs] Python CollectionReader should return at least one byte to caller pe...
The manifest format makes it possible to describe a single file consisting of a small amount of data from each of man... Tom Clegg
03:32 pm Revision b9020f29 (arvados): 3153: minor test updates: rename the variable "active_recipients" as...
Radhika Chippada
03:23 pm Story #3153: [API] Configuration option to automatically set up users (VM, repository, invite)
I also went back and tested Ward's theory that only one message is available during the test run. This is not true. W... Radhika Chippada
11:35 am Story #3153: [API] Configuration option to automatically set up users (VM, repository, invite)
Tom:
1. "use the existing setup_repo_vm_links method instead of replicating its functionality" : Yes, you are righ...
Radhika Chippada
03:17 pm Revision 9bb0d767 (arvados): 3153: update tests to look for new user created message also when an...
Radhika Chippada
01:19 pm Revision a39032f9 (arvados): 3153: when new_users_are_active config param is set, even blackliste...
Radhika Chippada
11:07 am Revision 523627b6 (arvados): Merge branch '3153-auto-setup-tests' into 3153-auto-setup-user
Radhika Chippada
11:00 am Revision 33b9b5e6 (arvados): 3153: change variable name in test from valid_username to ok_to_auto...
Radhika Chippada
10:50 am Revision 38f75fbc (arvados): 3153: directly invoke setup method during auto-setup
Radhika Chippada

08/22/2014

11:04 pm Story #3153: [API] Configuration option to automatically set up users (VM, repository, invite)
In services/api/app/models/user.rb would it be better to set ... Tom Clegg
04:17 pm Story #3153: [API] Configuration option to automatically set up users (VM, repository, invite)
Tom, I see your logic for generating unique username now. Reverted my while loop with count. Reassigning the review t... Radhika Chippada
10:46 pm Revision 195c3401 (arvados): 3153: Add integration tests.
Tom Clegg
07:08 pm Story #3661 (Resolved): [Workbench] Add "Move" and "Copy" buttons to top of #show page for every ...
Tom Clegg
06:49 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
Noticed this seems odd in the test case that returns 200 despite not deleting any data. Shouldn't we expect copies_de... Tom Clegg
05:33 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
Tim Pierce wrote:
> > I think @func (v *UnixVolume) Delete@ in @volume_unix.go@ is still missing its error checking ...
Tom Clegg
01:57 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
at commit:c15f086:
Tom Clegg wrote:
> Tim Pierce wrote:
> > Updated with error checking. Also added a rudimenta...
Tim Pierce
11:06 am Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
Tim Pierce wrote:
> Updated with error checking. Also added a rudimentary unit test case to TestDeleteHandler.
L...
Tom Clegg
06:37 pm Bug #3660 (Resolved): [Workbench] Project action buttons (add subproject, add data) should appear...
Tom Clegg
06:11 pm Story #3354: [Workbench] Render description attributes as textile
Radhika also pointed out that we should provide some hint to the user that it's possible to use Textile here. Perhaps... Tom Clegg
06:09 pm Story #3354: [Workbench] Render description attributes as textile
Just noticed the regular hyperlink style doesn't seem to work. Is this caused by the Arvados UUID link feature, or so... Tom Clegg
05:04 pm Task #3608: Review branch: 3112-report-bug
Please take another look. Except for confining event handling to modal window, all the rest of your comments / sugges... Radhika Chippada
05:03 pm Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
Tom, addressed all your comments. Please take another look. Thanks. Radhika Chippada
04:59 pm Story #3036 (New): [API] Use regular uuids instead of content hashes to identify collections
Tom Clegg wrote:
> At commit:d08c3a5...
>
> @sdk/python/arvados/commands/put.py@
> * I think it would be neater ...
Peter Amstutz
04:51 pm Revision ed949940 (arvados): Accomodate otherwise valid user-supplied portable data hashes with n...
hint, as provided by crunch. Peter Amstutz
04:38 pm Task #3659 (Resolved): arv-put exposes retry support
Probably through a simple @--retries@ switch. Brett Smith
04:37 pm Task #3658 (Resolved): PySDK Collection classes expose retry support
Brett Smith
04:35 pm Bug #3147: [SDKs] Python clients should automatically retry failed API and Keep requests (includi...
3147-pysdk-retries-wip is up for review. This adds retry support to KeepClient, which is the lowest-level part of th... Brett Smith
04:31 pm Task #3657 (Resolved): Review 3147-pysdk-retries-wip
Brett Smith
04:30 pm Revision 66eb1f64 (arvados): 3147: Add retry support to Python SDK's KeepClient.
Brett Smith
04:30 pm Revision 3e24c544 (arvados): 3147: Move fake Python HTTP response generation to arvados_testutil.
Other tests can use this functionality. Brett Smith
04:30 pm Revision 5632bb3b (arvados): 3147: Remove old Keep signing support from Python SDK.
Per Tom. Brett Smith
04:30 pm Revision a4359d15 (arvados): 3147: Add RetryLoop to the Python SDK.
This provides a general-purpose mechanism for us to retry all kinds of
operations.
Brett Smith
04:30 pm Revision aead1339 (arvados): 3147: Add check_http_response_success to Python SDK.
Other parts of the SDK need to end loops based on the result of an
HTTP request. This function puts that logic in on...
Brett Smith
04:30 pm Revision 51334e82 (arvados): 3147: Add HTTPRetryLoop to the Python SDK.
Brett Smith
04:22 pm Revision 3f94855e (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
04:17 pm Task #3643: Review branch: 3153-auto-setup-user
Updated unique username logic per your suggestion. Please take another look. Thanks. Radhika Chippada
04:14 pm Revision 8f46cb4a (arvados): Merge branch 'master' into 3036-collection-uuids
Peter Amstutz
04:13 pm Task #3623 (Resolved): Review branch: 3188-remove-selected-button
Radhika Chippada
03:57 pm Task #3623 (In Progress): Review branch: 3188-remove-selected-button
Tom Clegg
04:10 pm Revision d68db5e4 (arvados): Reject empty fields in job creation filters. no issue #
Peter Amstutz
04:10 pm Bug #3183 (Resolved): [Workbench] In project view, when "Remove selected" button is used in the "...
Applied in changeset arvados|commit:db88e7487f1fca50e00c5fc004e67b922a41ad29. Radhika Chippada
04:03 pm Bug #3183: [Workbench] In project view, when "Remove selected" button is used in the "Selected" d...
LGTM, thanks. (But I noticed the branch is called 3188 but the story is 3183) Tom Clegg
04:09 pm Revision f5783fd9 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
04:08 pm Revision db88e748 (arvados): closes #3183
Merge branch '3188-remove-selected-button' Radhika Chippada
04:05 pm Revision b6487d67 (arvados): Merge branch 'master' into 3188-remove-selected-button
Radhika Chippada
04:02 pm Revision c808c34d (arvados): 3153: fix the while loop logic.
Radhika Chippada
03:54 pm Revision 44064fd5 (arvados): Improve error checking a bit on find_commit_range for bad revisions ...
repositories. no issue # Peter Amstutz
03:51 pm Revision f1081424 (arvados): 3112: reload current location when error report modal is closing. ot...
Radhika Chippada
03:31 pm Revision 23ba171b (arvados): 3112: modal is shown by js
Radhika Chippada
03:22 pm Revision d85ec3b1 (arvados): Display first file in collection if name field is nil or empty. refs...
Peter Amstutz
02:45 pm Story #3656 (Resolved): [SDKs] "arv create object_type" should create a new object and then open ...
Tom Clegg
02:42 pm Task #3655 (Resolved): [SDKs] "arv edit" should not fail just because some special attribute (whi...
Possible ways to improve:
* Do not include unchanged attributes in the "update" API call.
** This fixes the bug onl...
Tom Clegg
02:23 pm Bug #3098 (Rejected): arv-mount refers to projects as "groups", doesn't mount the root group, doe...
duplicate of #3644 Tom Clegg
01:59 pm Revision 68c3fbc9 (arvados): Change 'expire_time' column to 'expires_at' for consistency with oth...
columns. Peter Amstutz
01:56 pm Revision 0bbd1138 (arvados): Display first file in collection if name field is nil or empty. refs...
Peter Amstutz
01:52 pm Revision c15f0864 (arvados): 3448: unit tests, bug fixes
UnixVolume.Delete tests the return status of lockfile (oops, left out of
previous commit)
New unit/integration tests...
Tim Pierce
01:49 pm Revision a73e2817 (arvados): 3112: ajax event handling on form not working. reverting back to doc...
Radhika Chippada
01:39 pm Story #3654 (Resolved): [Workbench] Add "combine selected collections" and "combine selected file...
Tom Clegg
01:37 pm Story #3171 (In Progress): [API] Modify permission model to allow users to see a subset of other ...
Tom Clegg
01:25 pm Revision 4dd469c1 (arvados): Merge branch 'master' into 3036-collection-uuids
Peter Amstutz
01:21 pm Task #3653 (Resolved): Review 3171-group-membership
Tom Clegg
01:21 pm Task #3564 (In Progress): Design appropriate "join group" interface
Tom Clegg
01:21 pm Task #3563 (Resolved): Write tests
Tom Clegg
01:21 pm Task #3562 (Resolved): Change permission model
Tom Clegg
11:58 am Revision 5674ba0e (arvados): 3171: Do not use select param for database lookup during create/dest...
Tom Clegg
11:58 am Revision a3b9c187 (arvados): 3171: Skip find_object_by_uuid during :create action.
Tom Clegg
11:56 am Revision 62d9e76a (arvados): 3171: Add fixtures to make Workbench tests pass under new permission...
Tom Clegg
11:56 am Task #3631 (Resolved): Review 3504-clients-compatible-with-3036
Peter Amstutz
11:56 am Task #3507 (Resolved): Update clients to permit arvados uuids for Collections
Peter Amstutz
09:16 am Task #3507 (In Progress): Update clients to permit arvados uuids for Collections
Peter Amstutz
11:22 am Revision 12850612 (arvados): 3036: Move manifest_text validation into Collection model. Change
uuids_for_docker_image to find_all_for_docker_image which returns Collection
objects instead of uuids. Remove unused...
Peter Amstutz
11:14 am Revision d9cfb1a3 (arvados): 3153: when exsiting repository name or vm login link is used as user...
Radhika Chippada
11:09 am Revision 9624ed09 (arvados): 3153: when deriving unique name, look for all can_login links, not j...
Radhika Chippada
10:30 am Revision c005c5ab (arvados): Merge branch 'master' into 3153-auto-setup-user
Radhika Chippada
10:30 am Revision 1b4f261c (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
10:29 am Revision 7a27da09 (arvados): 3112: limit ajax event handling only to the report form
Radhika Chippada
09:58 am Revision 1966eff7 (arvados): Merge branch '3504-clients-compatible-with-3036' refs #3504
Peter Amstutz
09:44 am Story #3504: [SDKs] Clients are compatible with #3036
All that looks good, and I haven't found any further problems. Thanks! Tom Clegg
09:05 am Story #3504: [SDKs] Clients are compatible with #3036
commit:da8b740
# Removed tag rendering code from project rows.
# Merged a few small fixes from 3036
# Tests pass
Peter Amstutz
09:17 am Task #3580 (In Progress): Update tests
Peter Amstutz
09:16 am Task #3580 (Resolved): Update tests
Peter Amstutz
09:16 am Task #3509 (Resolved): Links to collections in workbench render the "name" field sensibly
Peter Amstutz
09:16 am Task #3579 (Resolved): Update test fixtures
Peter Amstutz
09:16 am Task #3581 (Resolved): Update workbench
Peter Amstutz
09:16 am Task #3578 (Resolved): Write db migration
Peter Amstutz
09:16 am Task #3503 (Resolved): Document intended behavior and design for projects, collections and permis...
Peter Amstutz
09:16 am Task #3502 (Resolved): Document expectations for content addressing
Peter Amstutz
09:15 am Task #3614 (Resolved): Review 3441-python-keep-log-level
Peter Amstutz
09:07 am Revision 86c4b60b (arvados): Merge remote-tracking branch 'remotes/origin/3504-clients-compatible...
Conflicts:
apps/workbench/app/views/projects/_show_contents_rows.html.erb
Peter Amstutz
08:48 am Revision cb07b236 (arvados): 3036: Always select "id" column unless distinct = true. Include uuid =
portable_data_hash when requesting collection by uuid. Changed test fixture
"owned_by_aproject_with_no_name" to be a...
Peter Amstutz
08:44 am Revision da8b7405 (arvados): 3504: Don't create stand-in "name" links for post #3036 apiserver
Peter Amstutz
08:44 am Revision 66e40806 (arvados): 3504: Support copy and moving collections on new apiserver
Peter Amstutz
08:42 am Revision fe76288c (arvados): 3504: Don't create stand-in "name" links for post #3036 apiserver
Peter Amstutz
08:35 am Revision e951b096 (arvados): 3504: Back out tags on project rows. Revisit in a later story.
Peter Amstutz

08/21/2014

11:14 pm Revision 3ef0016f (arvados): 3171: Update tests to conform to new permission behavior.
Obey "select" parameter during #show too, not just #index. Tom Clegg
08:16 pm Revision 42a27c7c (arvados): 3171: Do not follow permission graph through a User, unless permissi...
Tom Clegg
08:12 pm Revision 77954799 (arvados): 3171: Outdent giant "if ... else return self" construct.
Tom Clegg
07:15 pm Task #3562 (In Progress): Change permission model
Tom Clegg
07:00 pm Revision e386d206 (arvados): 3448: add error checking in volume.Touch()
Add error checking that was erroneously left out of previous commit.
Refs #3448.
Tim Pierce
06:54 pm Revision ce9c2266 (arvados): 3153: trailing white space
Radhika Chippada
06:40 pm Task #3652 (Resolved): Rewrite PullList as a BlockManager implementation
Keepstore should be able to fulfill a pull list asynchronously: once a pull list has been received, send it to a goro... Tim Pierce
06:26 pm Story #3651 (Resolved): Running programs from Keep
Currently there are three basic ways to run programs:
- Create a Docker image with your program installed and ru...
Abram Connelly
06:25 pm Task #3650 (Resolved): Implement PullHandler
The PullHandler should be called for any "PUT /pull" request.
It expects the request body to be a JSON object enco...
Tim Pierce
06:25 pm Revision 562a420a (arvados): 3153: return nil if no unique username can be derived from an email ...
Radhika Chippada
06:20 pm Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
Another issue to clarify: if keepstore tries every server on the list for a particular block, and every one of the se... Tim Pierce
06:01 pm Story #3414: [Keep] Keep Server accepts list of blocks to pull from other servers
In order for one keepstore to pull blocks from another keepstore, it will need to sign the locator. How can it do th... Tim Pierce
05:33 pm Bug #3147: [SDKs] Python clients should automatically retry failed API and Keep requests (includi...
This story has an interesting interaction with Keep GET requests. The SDK's current algorithm for that is: Make a li... Brett Smith
05:14 pm Story #3504: [SDKs] Clients are compatible with #3036
(If it's not already removed) I think this is obsolete now in projects.css.scss... Tom Clegg
04:54 pm Story #3504: [SDKs] Clients are compatible with #3036
At commit:73bbd41...
* The "add tag" button doesn't actually work on the projects#show&rarr;collections tab. I thi...
Tom Clegg
03:11 pm Story #3504: [SDKs] Clients are compatible with #3036
Tom Clegg wrote:
> The changes to the links view etc. are harmless, I'm just asking for the following change, to a...
Peter Amstutz
02:07 pm Story #3504: [SDKs] Clients are compatible with #3036
Peter Amstutz wrote:
> Agreed that the links index page is not very nice. However I'm going to leave the code it be...
Tom Clegg
12:07 pm Story #3504: [SDKs] Clients are compatible with #3036
Tom Clegg wrote:
> At commit:2769713
>
> Workbench
> * Reviving tags might be a good idea in general but please ...
Peter Amstutz
05:11 pm Revision a9c59725 (arvados): 3036: Most workbench tests pass.
Peter Amstutz
05:10 pm Revision 5d651aff (arvados): 3504: Support copy and moving collections on new apiserver
Peter Amstutz
04:50 pm Revision 1acc76ca (arvados): 3112: change submit button text
Radhika Chippada
04:46 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
Updated at commit:e386d20
Tom Clegg wrote:
> Looking at commit:dc2bf5c
>
> This looks much closer, thanks.
> ...
Tim Pierce
04:32 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
Looking at commit:dc2bf5c
This looks much closer, thanks.
Noticed a couple of things
* Need error checking on ...
Tom Clegg
04:15 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
Tim Pierce wrote:
> > * "GetBlock() in handlers.go should accept an additional argument indicating whether it should...
Tom Clegg
03:34 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
Ready for another look: commit:dc2bf5c
Tom Clegg wrote:
> At commit:56d36387
>
> In handlers.go, we call GetBl...
Tim Pierce
02:39 pm Feature #3448: [Keep] storage server records (and reports in index) the timestamp of the most rec...
At commit:56d36387
In handlers.go, we call GetBlock(), which walks through some/all of the volumes looking for the...
Tom Clegg
02:11 pm Feature #3448 (In Progress): [Keep] storage server records (and reports in index) the timestamp o...
Tim Pierce
04:43 pm Revision 3616a539 (arvados): 3448: add error checking
Code review comments in https://arvados.org/issues/3448#note-9
* volume.Touch() must fail if the file cannot be lock...
Tim Pierce
04:33 pm Revision 1080ec93 (arvados): 3448: unit tests for deleting new blocks
Added cases to TestDeleteHandler to test that blocks newer than
-permission_ttl will not be removed from the volume e...
Tim Pierce
04:22 pm Revision cdb8b00d (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
04:15 pm Story #3153: [API] Configuration option to automatically set up users (VM, repository, invite)
Went ahead and added the loop counter with 10000 iterations. Please do let me know if you have any suggestions about ... Radhika Chippada
03:18 pm Story #3153: [API] Configuration option to automatically set up users (VM, repository, invite)
Tom, all suggestions are applied. Please take another look.
I have one concern about deriving unique username. Ass...
Radhika Chippada
04:00 pm Revision 043ff05c (arvados-dev): Declare empty variables up top to avoid bash parsing errors. no...
Peter Amstutz
04:00 pm Revision 043ff05c (arvados): Declare empty variables up top to avoid bash parsing errors. no iss...
Peter Amstutz
03:55 pm Revision dc2bf5c8 (arvados): 3448: code review comments.
Extend GetBlock() to optionally update the file modification time, so
PUT operations can update the timestamp of an e...
Tim Pierce
03:43 pm Revision c5ec75ee (arvados): 3153: use loop with counter than while(true) to derive unique username
Radhika Chippada
03:20 pm Bug #3649 (Rejected): [Crunch] 'Pipeline_instances' page shows job running when it has failed
I believe I cancelled the second and last job (but I can't quite remember, sorry) in the pipeline qr1hi-d1hrv-aa011c9... Abram Connelly
03:09 pm Revision 73bbd418 (arvados): 3504: Remove link to links index page on tags. Add comment to
CollectionsController#choose. Adjust column width in collections file table. Peter Amstutz
03:08 pm Revision 48956dad (arvados): 3504: Remove link to links index page on tags. Add comment to
CollectionsController#choose. Adjust column width in collections file table. Peter Amstutz
02:52 pm Revision 1f438358 (arvados): 3153: update tests to check for existing repo name
Radhika Chippada
02:49 pm Revision a3a84c13 (arvados): 3504: Don't set owner_uuid redundantly.
Peter Amstutz
02:45 pm Revision a131e0cc (arvados): 3036: Use preload_objects to fetch owner_uuids in the controller ins...
Peter Amstutz
02:44 pm Revision 5b7762f1 (arvados): 3036: Use preload_objects to fetch owner_uuids in the controller ins...
Peter Amstutz
02:25 pm Revision 12e80e52 (arvados): 3448: minor bugfixes
Refs #3448. Tim Pierce
02:21 pm Revision d7e56bd7 (arvados): Permit setting environment variables on command line. Added workben...
apiserver_test and cli_test variables to provide parameters to the respective
rake tests. no issue #
Peter Amstutz
02:21 pm Revision d7e56bd7 (arvados-dev): Permit setting environment variables on command line. Added wor...
apiserver_test and cli_test variables to provide parameters to the respective
rake tests. no issue #
Peter Amstutz
02:11 pm Task #3647 (In Progress): Add timestamp support to PUT and DELETE
Tim Pierce
02:11 pm Task #3647 (Resolved): Add timestamp support to PUT and DELETE
* PUT requests should update the modification time of a block on success. (The Volume interface should provide a volu... Tim Pierce
02:10 pm Revision 754d8543 (arvados): 3171: Add tests for desired behavior. Start using FactoryGirl.
Tom Clegg
02:06 pm Story #3646 (New): [Workbench] Toggle enable_job_reuse flag using pipeline instance show/edit/run...
Tom Clegg
01:56 pm Revision 0a658f81 (arvados): 3153: username regexp is updated
Radhika Chippada
01:55 pm Revision 56d36387 (arvados): 3448: check block timestamp before DELETE
volume.Delete locks the target file and checks the timestamp before
proceeding. If the file is newer than permission_...
Tim Pierce
01:23 pm Revision 0b10fae7 (arvados): Be smarter about cleanup in crunch-job after a job finishes. This sh...
resolve the problem of the many leftover stale mount points.
no issue #
Ward Vandewege
01:21 pm Revision 1e30d46f (arvados): Merge branch 'master' into 3153-auto-setup-user
Radhika Chippada
01:19 pm Revision 7153f887 (arvados): 3153: update regexp, email message
Radhika Chippada
12:13 pm Revision 6403b872 (arvados): Merge remote-tracking branch 'refs/remotes/origin/3504-clients-compa...
Conflicts:
sdk/python/arvados/commands/put.py
sdk/python/tests/test_arv_put.py
Peter Amstutz
12:13 pm Revision 112d4229 (arvados): 3504: Set owner_uuid when creating collection (will set owner_uuid o...
on old apiserver, and set owner of collection object directly on new
apiserver.)
Peter Amstutz
11:39 am Revision e8670f2a (arvados): 3504: Set the capybara driver explicitly so tests pass again.
Peter Amstutz
11:04 am Revision f16be173 (arvados): Merge remote-tracking branch 'origin/master' into 3504-clients-compa...
Peter Amstutz
11:03 am Revision 897e6cc8 (arvados): 3504: Fixed preload_links_for_objects to use @objects.to_a. Fix col...
page to restore link names. Remove obsolete tests for "persist" button. Tweak
pipeline instance tests.
Peter Amstutz

08/20/2014

10:08 pm Revision 953f5e01 (arvados): Merge branch 'master' into 3153-auto-setup-user
Radhika Chippada
10:06 pm Revision 1e7906c1 (arvados): 3112: move ajax event handling into a separate js file
Radhika Chippada
07:53 pm Task #3563 (In Progress): Write tests
Tom Clegg
07:44 pm Bug #3441 (Resolved): [SDKs] arv-put (if not in debug mode) should not print an error message whe...
Tom Clegg
07:34 pm Bug #3645 (Resolved): [Keep] Rename -permission-key-file to -blob-signing-key-file for clarity an...
Tom Clegg
07:21 pm Revision 327681d1 (arvados): Unset ARVADOS_ variable from the environment before running tests. ...
Peter Amstutz
07:21 pm Revision 327681d1 (arvados-dev): Unset ARVADOS_ variable from the environment before running test...
Peter Amstutz
07:18 pm Story #3153: [API] Configuration option to automatically set up users (VM, repository, invite)
At commit:347d974...
@services/api/app/models/user.rb@
* In @auto_setup_new_user@, check @Rails.configuration.aut...
Tom Clegg
06:38 pm Revision 63fedb56 (arvados): 3112: use jquery syntax for find buttons
Radhika Chippada
05:37 pm Revision 28d5074c (arvados): 3112: and it would help if that said partial is committed :)
Radhika Chippada
05:26 pm Revision ecc16570 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
05:23 pm Revision 45f82943 (arvados): 3112: use partial to report error
Radhika Chippada
05:17 pm Task #3643 (In Progress): Review branch: 3153-auto-setup-user
Tom Clegg
03:47 pm Task #3643 (Resolved): Review branch: 3153-auto-setup-user
Branch ready for review. Radhika Chippada
05:10 pm Revision 7c78bea1 (arvados): 3504: Use preload_links_for_objects in projects_controller. Use
self[:portable_data_hash] in collection.rb to avoid recursive definition of
.uuid and .portable_data_hash. Revert ch...
Peter Amstutz
04:42 pm Revision 96fefe23 (arvados): Fix run_test_server Keep blob filename handling.
No issue #. Brett Smith
04:33 pm Revision c732e3d3 (arvados): 3504: CollectionReader accepts arvados object collection uuids. 'ar...
owner_uuid when collection is created. Fixed indentation. Peter Amstutz
04:18 pm Revision e8566e29 (arvados): 3036: Fix arv-put to write name/owner of collections object directly...
'name' field is present on the returned object. Python SDK tests pass. Peter Amstutz
04:15 pm Revision b9eb0404 (arvados): 3036: Commented out failing FUSE tests. Fixed uuids on fixtures to ...
prefix. Made events.py less noisy. Peter Amstutz
04:11 pm Bug #3644 (Resolved): [SDK] Fix arv-mount --tags and --groups modes to handle "home" project and ...
See notes from Brett.
Possible hierarchy:...
Peter Amstutz
04:08 pm Revision 9beaaf14 (arvados): 2800: run_test_server only uses tests/tmp for real Python tests.
tests/tmp is not available for Go tests.
This fixes a bug introduced in da01d7e1.
No issue #.
Brett Smith
04:05 pm Revision cf9e7751 (arvados): Update "standard objects" page to reflect change from keep_disks to
keep_services, and add some sanity checks. No issue # Tom Clegg
03:54 pm Revision 3e443d57 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
03:51 pm Revision 17f836f3 (arvados): Add libpcre3-dev dependency. Sort package names in apt-get install c...
No issue # Tom Clegg
03:33 pm Revision 347d974a (arvados): Merge branch 'master' into 3153-auto-setup-user
Radhika Chippada
03:29 pm Revision 518d15a5 (arvados): 3153: update the new user email to include a phrase saying the user ...
Radhika Chippada
03:12 pm Revision 8598092d (arvados): 2800: Delay API client creation in Python CollectionReader.
This more closely matches prior behavior, and is necessary to make the
Keep tests pass. See included comments for de...
Brett Smith
03:04 pm Revision 5d8e0b2c (arvados): Treat success=true exitcode!=0 as success when collating output,
just like we did when we decided the task completed. No issue # Tom Clegg
02:36 pm Revision a44040a0 (arvados): 3153: tests with duplicate username
Radhika Chippada
02:20 pm Task #3639 (Resolved): Review 2800-pysdk-no-global-keep-client-wip
Applied in changeset arvados|commit:05bea2c50474edeb9d0e3fb8daaf838b58ea9a54. Brett Smith
09:55 am Task #3639 (Resolved): Review 2800-pysdk-no-global-keep-client-wip
Brett Smith
02:20 pm Bug #2800 (Resolved): [Crunch] Remove global state in Python SDK
Applied in changeset arvados|commit:05bea2c50474edeb9d0e3fb8daaf838b58ea9a54. Brett Smith
09:55 am Bug #2800: [Crunch] Remove global state in Python SDK
2800-pysdk-no-global-keep-client-wip is up for review to deprecate the global Keep client. Brett Smith
02:18 pm Revision 05bea2c5 (arvados): Merge branch '2800-pysdk-no-global-keep-client-wip'
Closes #2800, #3639. Brett Smith
02:18 pm Revision e17db6aa (arvados): 2800: Use dedicated logger in Python SDK api module.
Brett Smith
02:18 pm Revision 3b9b5c14 (arvados): 2800: Introduce TestCaseWithServers to Python SDK.
This is a subclass of unittest.TestCase. It looks for specific class
variables to launch supporting Arvados servers ...
Brett Smith
02:18 pm Revision da01d7e1 (arvados): 2800: Make run_test_server put Keep tempfiles in tests/tmp/.
Brett Smith
02:18 pm Revision 40d92dda (arvados): 2800: Use local KeepClients in Python SDK tests.
This improves test isolation, and demonstrates the preferred way to
use the API.
Brett Smith
02:18 pm Revision 327e1768 (arvados): 2800: Migrate from Keep to KeepClient in the Python SDK.
Brett Smith
02:18 pm Revision f05bc096 (arvados): 2800: Remove global state from KeepClient.
This commit makes it possible to build and use a KeepClient that isn't
influenced by changes in outside state. Chang...
Brett Smith
02:18 pm Revision 1afe2c7b (arvados): 2800: Improve spec conformance of Python SDK KeepLocator.
* Require size to immediately follow digest.
* Accept all valid hints.
Brett Smith
02:18 pm Revision f6e6e018 (arvados): 2800: Introduce config.flag_is_true() to Python SDK.
Brett Smith
02:09 pm Story #3036: [API] Use regular uuids instead of content hashes to identify collections
At commit:d08c3a5...
@sdk/python/arvados/commands/put.py@
* I think it would be neater to provide @owner_uuid@ up...
Tom Clegg
11:43 am Revision 78b4e097 (arvados): Merge branch 'master' into 3153-auto-setup-user
Radhika Chippada
11:40 am Revision 9074f3f3 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
11:39 am Revision d3be53db (arvados): 3112: update config param names for report notification
Radhika Chippada
11:25 am Bug #3642 (Resolved): [Workbench] Search box should not be displayed in top-nav for non-active us...
Radhika Chippada
11:20 am Revision 35a3223e (arvados): Merge branch '3499-home-project-docs-wip'
Closes #3516. Refs #3499. Brett Smith
11:20 am Task #3516 (Resolved): Update docs
Applied in changeset arvados|commit:35a3223ee35279c04552d5d3d372998711a956ab. Brett Smith
11:19 am Story #3499: [Workbench] Objects owned directly by user are visible on a "home" project
Radhika Chippada wrote:
> - In the newly added selection image "workbench-move-selected.png", I think it would be mo...
Brett Smith
11:07 am Story #3499: [Workbench] Objects owned directly by user are visible on a "home" project
Brett, everything looks great now, but for the one concern below.
- In the newly added selection image "workbench-...
Radhika Chippada
10:33 am Story #3499: [Workbench] Objects owned directly by user are visible on a "home" project
Radhika,
All these suggestions are great. I've pushed a new commit to incorporate everything you suggested.
Ra...
Brett Smith
08:07 am Story #3499: [Workbench] Objects owned directly by user are visible on a "home" project
Review feed back for the 3499-doc branch:
1. api-tokens.html.textile.liquid
In the sentence “Click on the link ...
Radhika Chippada
11:18 am Revision 1a2947bd (arvados): 3499: Update Keep tutorial for recent UI changes.
Brett Smith
11:18 am Revision 33755fab (arvados): 3499: Improve style consistency throughout docs.
* Capitalize Dashboard.
* Article use: "access Workbench," "access the Dashboard."
* Bold references to Workbench U...
Brett Smith
11:18 am Revision 57c56fea (arvados): 3499: Update pipeline tutorial for recent UI changes.
Brett Smith
11:08 am Task #3611: Review 3499-home-project-docs-wip
Brett, added one last comment to the story. Thanks. Radhika Chippada
08:10 am Task #3611: Review 3499-home-project-docs-wip
Added review comments to the story. Radhika Chippada
10:51 am Revision e398326f (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
10:45 am Story #3640 (New): [SDKs] Add runtime option to SDKs (esp Python and arv-mount) to use a filesyst...
Background:
arv-mount has a block cache, which improves performance when the same blocks are read multiple times. ...
Tom Clegg
10:35 am Bug #3610 (Resolved): [Workbench] pipeline_instances#show's Components tab clobbers the websocket...
Applied in changeset arvados|commit:de3b2f9a31e7d6df9fb53fff149f5ee43d1664d0. Anonymous
10:10 am Bug #3610: [Workbench] pipeline_instances#show's Components tab clobbers the websocket log viewer...
LGTM, please merge. Ward Vandewege
10:32 am Revision 84027468 (arvados): 3499: First round of review updates.
Brett Smith
10:31 am Revision e824ef36 (arvados): Merge branch 'master' into 3112-report-bug. Also, break search testi...
Conflicts:
apps/workbench/app/controllers/application_controller.rb
apps/workbench/config/application.default.yml
...
Radhika Chippada
10:10 am Revision de3b2f9a (arvados): Merge branch '3610-pipeline-log-refresh' closes #3610
Tom Clegg
10:10 am Task #3636 (Resolved): Review 3610-pipeline-log-refresh
Ward Vandewege
09:55 am Task #3621 (Resolved): Review 2800-pgs branch
Brett Smith
09:49 am Bug #3638 (New): [Workbench] [Draft] When moving a job or pipeline between projects, outputs and ...
Tom Clegg
09:47 am Revision 5e303407 (arvados): 2800: Use dedicated logger in Python SDK api module.
Brett Smith
09:47 am Revision 13fe1f60 (arvados): 2800: Make run_test_server put Keep tempfiles in tests/tmp/.
Brett Smith
09:47 am Revision 4d716aad (arvados): 2800: Use local KeepClients in Python SDK tests.
This improves test isolation, and demonstrates the preferred way to
use the API.
Brett Smith
09:47 am Revision c84954c1 (arvados): 2800: Introduce TestCaseWithServers to Python SDK.
This is a subclass of unittest.TestCase. It looks for specific class
variables to launch supporting Arvados servers ...
Brett Smith
09:47 am Revision 4a2f470d (arvados): 2800: Migrate from Keep to KeepClient in the Python SDK.
Brett Smith
09:23 am Bug #3261: [Keep] arv-put fails if permission system is enabled
* Bug: CollectionWriter.finish() (as used by well-behaved crunch scripts, but not crunch-job) threw away its permissi... Tom Clegg
09:22 am Bug #3637 (Resolved): [Workbench] Add "copy" operation to selection dropdown on projects#show tab...
trying to move d0e8e7747e288e2778b25e70890e95cd+499 to project qr1hi-j7d0g-qhf708xb2s7cow2 didn't work. Bryan Cosca
09:04 am Revision a3222e35 (arvados): Merge branch 'master' into 3354-render-textile
Conflicts (resolved):
apps/workbench/app/controllers/application_controller.rb
Phil Hodgson
08:32 am Revision 7283c472 (arvados): 2800: Remove global state from KeepClient.
This commit makes it possible to build and use a KeepClient that isn't
influenced by changes in outside state. Chang...
Brett Smith

08/19/2014

10:10 pm Revision d08c3a56 (arvados): 3036: Fix arv-put to write name/owner of collections object directly...
'name' field is present on the returned object. Python SDK tests pass. Peter Amstutz
10:09 pm Revision 57d7ce9d (arvados): 3036: Fix #updating collection objects. Fixed database seed for emp...
Peter Amstutz
09:09 pm Task #3587 (Resolved): Review 3505-virtual-work-dir
Tom Clegg
09:00 pm Task #3636 (Resolved): Review 3610-pipeline-log-refresh
Tom Clegg
08:59 pm Task #3635 (Resolved): Stop clobbering live listener with tab-load event every time it hears an e...
Tom Clegg
08:59 pm Task #3635 (Resolved): Stop clobbering live listener with tab-load event every time it hears an e...
Tom Clegg
08:57 pm Revision e13874a4 (arvados): 3610: Move live log display into its own tab, avoid clobbering with ...
* PipelineInstances#show gets a Log tab dedicated to the live log
window, rather than hiding it below the component...
Tom Clegg
08:26 pm Revision 9336a8a8 (arvados): Fix failure detection for python tests. No issue #
Tom Clegg
08:26 pm Revision 9336a8a8 (arvados-dev): Fix failure detection for python tests. No issue #
Tom Clegg
07:09 pm Bug #3610 (In Progress): [Workbench] pipeline_instances#show's Components tab clobbers the websoc...
Tom Clegg
07:07 pm Bug #3634 (Resolved): [Workbench] Page content is the same as where you left it when navigating (...
Page content can be updated by Javascript and AJAX, but if it is, and one navigates away, and then uses the browser b... Tom Clegg
07:04 pm Revision 79df4374 (arvados-dev): Install py test deps even if py tests fail. Make docs skippable....
Tom Clegg
07:04 pm Revision 79df4374 (arvados): Install py test deps even if py tests fail. Make docs skippable. No ...
Tom Clegg
06:20 pm Story #3504: [SDKs] Clients are compatible with #3036
At commit:2769713
Workbench
* Reviving tags might be a good idea in general but please resist further creep in th...
Tom Clegg
05:58 pm Bug #3344 (Resolved): [Workbench] Cannot [figure out how to] rename a collection created by arv-p...
Sally reports in IRC that the fix in #3421 was sufficient. Brett Smith
05:32 pm Task #3611 (In Progress): Review 3499-home-project-docs-wip
Radhika Chippada
05:30 pm Revision 01463a6f (arvados): Merge branch 'master' into 3153-auto-setup-user
Radhika Chippada
05:29 pm Revision 171cb08d (arvados): 3153: auto-setup user during creation.
Radhika Chippada
03:29 pm Feature #3633 (Closed): [Workbench] Compare pipeline templates, similar to the existing pipeline ...
Ward Vandewege
02:22 pm Revision 346ebae2 (arvados-dev): Merge branch 'skip-args'
no issue # Ward Vandewege
02:22 pm Revision 346ebae2 (arvados): Merge branch 'skip-args'
no issue # Ward Vandewege
01:57 pm Revision 0bcd962d (arvados-dev): ssh-authkeys: update authkeys when keydir is present but empty
When ~/.gitolite/keydir is present but empty, and someone runs 'gitolite
trigger POST_COMPILE', gitolite does not cle...
Sitaram Chamarty
01:19 pm Revision cbe594f5 (arvados): 3036: Fix merge mistakes in collection_controller.
Peter Amstutz
11:37 am Revision b1942917 (arvados): 3036: Fixed migration to migrate modified_by_client_uuid and
modified_by_user_uuid (because modified_by isn't a column, whoops). Also fills
in in useless updated_at column becau...
Peter Amstutz
11:36 am Revision 1a0a58c4 (arvados): Merge branch 'master' into 3036-collection-uuids
Conflicts:
services/api/app/controllers/arvados/v1/collections_controller.rb
services/api/app/models/collection.rb
Peter Amstutz
11:08 am Task #3631 (In Progress): Review 3504-clients-compatible-with-3036
Tom Clegg
11:07 am Task #3631 (Resolved): Review 3504-clients-compatible-with-3036
Tom Clegg
11:08 am Task #3632 (In Progress): Review 3036-collection-uuids
Tom Clegg
11:07 am Task #3632 (Resolved): Review 3036-collection-uuids
Tom Clegg
11:07 am Revision 67c0a6e0 (arvados): 3036: Updated migration to set modified_at instead of updated_at, ad...
Peter Amstutz
11:05 am Revision 27697133 (arvados): Merge branch 'master' into 3504-clients-compatible-with-3036
Peter Amstutz
10:42 am Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
(continued)
* After a little more thought about the vertical space problem: perhaps all we need to do is put @over...
Tom Clegg
10:21 am Revision 1e243a79 (arvados): 2800: Introduce config.flag_is_true() to Python SDK.
Brett Smith
10:21 am Revision b56f5fa9 (arvados): 2800: Improve spec conformance of Python SDK KeepLocator.
* Require size to immediately follow digest.
* Accept all valid hints.
Brett Smith
09:40 am Revision 289e5d15 (arvados): 3504: Fix collection chooser. Fix generic link render to use uuid i...
else is available. Fix tags for objects other than collections. Peter Amstutz
08:54 am Bug #3629 (New): [Workbench] Display timestamps in user's local timezone using class="localized-t...
Most places in workbench display the raw timestamps from the database, which are stored in UTC. This is inconvenient... Peter Amstutz

08/18/2014

11:13 pm Revision 6db406e9 (arvados): 3504: Fix collection page rendering to work with collections as regu...
Render tags onn project page. Improve helper function for rendering links to
Arvados objects.
Peter Amstutz
07:47 pm Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
Notes at commit:a9170bf
Haven't combed the code yet, but I have some feedback on the presentation:
* Workbench ...
Tom Clegg
07:18 pm Task #3608 (In Progress): Review branch: 3112-report-bug
Tom Clegg
07:15 pm Task #3626 (In Progress): Update docker images, esp. base and java-bwa-samtools
Tom Clegg
03:17 pm Task #3626 (Resolved): Update docker images, esp. base and java-bwa-samtools
Tom Clegg
07:05 pm Task #3484 (Resolved): Review 3114
Tom Clegg
07:05 pm Feature #3114 (Resolved): [Workbench] Add a "copy this collection to a project" button to collect...
Applied in changeset arvados|commit:6b0ad588b44ee30cd400e85031b56dcb2a8ac567. Anonymous
06:58 pm Revision 6b0ad588 (arvados): Merge branch '3114-copy-to-project' closes #3114
Tom Clegg
06:37 pm Revision 6882ae22 (arvados): Fix swapped install/test sections for fuse.
Tom Clegg
06:37 pm Revision 6882ae22 (arvados-dev): Fix swapped install/test sections for fuse.
Tom Clegg
06:26 pm Revision 2509f755 (arvados): 3114: Follow return_to param, if given, when redirecting users#show ...
Don't redirect non-html requests. Tom Clegg
06:18 pm Revision 903e49f3 (arvados): 3114: Update test case: searching for own uuid now shows home project.
Tom Clegg
06:02 pm Revision d81ea65d (arvados): 3114: Merge branch 'master' into 3114-copy-to-project
Tom Clegg
06:00 pm Bug #3628: [Workbench] The "delete" button in users page is not working
When I click on the "delete" button in users page, the page just hangs. When I look at the server logs, I notice that... Radhika Chippada
05:58 pm Bug #3628 (Duplicate): [Workbench] The "delete" button in users page is not working
Radhika Chippada
05:25 pm Revision 301abeab (arvados): 3593: Add explanatory comment about Workbench's user cache.
Refs #3593. Brett Smith
04:51 pm Revision f7768d3d (arvados): 3114: Fix href in json response for generic #create action too. See ...
Tom Clegg
04:49 pm Bug #3441 (In Progress): [SDKs] arv-put (if not in debug mode) should not print an error message ...
Tom Clegg
09:23 am Bug #3441: [SDKs] arv-put (if not in debug mode) should not print an error message when it gets "...
Reviewing commit:cd5fd13
I would consider promoting the message "Request fail: GET %s => %s: %s" from info to warn...
Brett Smith
04:48 pm Task #3274 (Resolved): Confirm bug still exists by reproducing somewhere
Tom Clegg
04:48 pm Task #3615 (Resolved): Review 3604-theme-and-new-user-process
Tom Clegg
09:59 am Task #3615 (In Progress): Review 3604-theme-and-new-user-process
Brett Smith
03:38 pm Bug #3627 (Resolved): [Workbench] Projects that are writable, but have root owner != current_user...
Tom Clegg
03:16 pm Task #3554 (Resolved): Update jenkins script
Tom Clegg
03:16 pm Task #3553 (Resolved): Review 3551-go-layout
Tom Clegg
02:48 pm Revision 05e6f52d (arvados): Display elapsed time for each test/install.
Tom Clegg
02:48 pm Revision 05e6f52d (arvados-dev): Display elapsed time for each test/install.
Tom Clegg
02:48 pm Revision 9b75f439 (arvados): Add missing "install fuse" and "test workbench".
Tom Clegg
02:48 pm Revision 9b75f439 (arvados-dev): Add missing "install fuse" and "test workbench".
Tom Clegg
02:40 pm Bug #3625 (New): [Workbench] API token provided in query string should not be ignored just becaus...
To reproduce:
# Log in to Workbench.
# Visit any Workbench page ?api_token=123abc (or a valid token).
# The new ...
Tom Clegg
02:30 pm Bug #3604 (Resolved): [Workbench] theming support for login and inactive user page is broken (may...
Applied in changeset arvados|commit:aa2adbcaa06c4f5dc7a6e54f3d9a5148b20fbbb1. Anonymous
02:00 pm Bug #3604: [Workbench] theming support for login and inactive user page is broken (maybe elsewher...
Tom Clegg wrote:
> > * I don't think this was introduced by any of your changes, but since I tested it: if I have an...
Brett Smith
01:51 pm Bug #3604: [Workbench] theming support for login and inactive user page is broken (maybe elsewher...
Radhika Chippada wrote:
> remove div.rounded
Done.
> Can you please update the workbench application.default.y...
Tom Clegg
11:23 am Bug #3604: [Workbench] theming support for login and inactive user page is broken (maybe elsewher...
Reviewing commit:c4c188c
* When I visit Workbench using the inactive_but_signed_user_agreement token, I get prompt...
Brett Smith
10:51 am Bug #3604: [Workbench] theming support for login and inactive user page is broken (maybe elsewher...
Tom, with the updates you put in for the profile implementation, a couple redundant items to be cleaned up.
- Sinc...
Radhika Chippada
02:28 pm Bug #2800: [Crunch] Remove global state in Python SDK
Fixed in commit:47dc22e. Thanks!
Tom Clegg
02:23 pm Bug #2800: [Crunch] Remove global state in Python SDK
Tom Clegg wrote:
> Brett Smith wrote:
> > * Please keep imports sorted alphabetically.
>
> Fixed (by not importi...
Brett Smith
02:07 pm Bug #2800: [Crunch] Remove global state in Python SDK
Brett Smith wrote:
> * We can skip the step of hashing strings for a cache key. We can just create a tuple of all t...
Tom Clegg
12:20 pm Bug #2800: [Crunch] Remove global state in Python SDK
Just a few small comments on commit:c5f8a89
* We can skip the step of hashing strings for a cache key. We can jus...
Brett Smith
02:26 pm Revision 8917fa82 (arvados): Merge branch '2800-pgs' refs #2800
Tom Clegg
02:25 pm Revision 47dc22e1 (arvados): 2800: Sort import statements.
Tom Clegg
02:21 pm Bug #3624 (Closed): [API] Remove redundant "updated_at" column
Peter Amstutz
02:17 pm Revision aa2adbca (arvados): Merge branch '3604-theme-and-new-user-process' closes #3604
Tom Clegg
02:16 pm Story #3532: [Keep] Keepstore queries API server to verify tokens
Outstanding work for this story is on 2769-keep-lookup-admin-tokens. https://arvados.org/projects/arvados/repository?... Tim Pierce
02:11 pm Story #3532 (In Progress): [Keep] Keepstore queries API server to verify tokens
Moving into 2014-08-27 sprint, as the principal work is done and this should only need review. Tim Pierce
02:13 pm Task #3272 (In Progress): Cache user authentication tokens
Tim Pierce
02:09 pm Story #3153 (In Progress): [API] Configuration option to automatically set up users (VM, reposito...
Radhika Chippada
02:08 pm Bug #3593: [Workbench] Workbench can't render exceptions
Brett, would you please add a comment at application_controller -> setup_user_session method line 439 with an explana... Radhika Chippada
02:07 pm Revision b7ab0180 (arvados): 3036: Ruby style change, use :search_up and :search_down symbols ins...
Peter Amstutz
02:02 pm Revision 1e368708 (arvados): 2800: Restore deleted comment which is still relevant.
Tom Clegg
02:01 pm Revision 2e89fc72 (arvados): 2800: Remove unnecessary sha1. Just use the tuple as an array key.
Tom Clegg
01:53 pm Task #3623 (Resolved): Review branch: 3188-remove-selected-button
just one line change Radhika Chippada
01:52 pm Task #3326 (Resolved): Fix it
Radhika Chippada
01:52 pm Bug #3183 (In Progress): [Workbench] In project view, when "Remove selected" button is used in th...
Radhika Chippada
01:42 pm Bug #3622 (New): [API] [refactor] Move system_group, system_user, etc to class methods in Group a...
Examples:
|Is now|Should be|
|<code class="ruby">system_user</code> |<code ...
Tom Clegg
01:39 pm Revision 82b77ceb (arvados): 3188: add data-toggle to link
Radhika Chippada
01:37 pm Revision f6634ddd (arvados): 3604: Remove useless slice.
Tom Clegg
01:35 pm Revision 5b43256c (arvados): 3604: Remove useless loop.
Tom Clegg
01:23 pm Revision accaf5ae (arvados): Do not try to predict uuid of new collection. refs #3261 refs #3504
Tom Clegg
01:15 pm Revision 3bd1f8da (arvados): Do not throw away permission hints when writing data. refs #3261
Tom Clegg
01:09 pm Revision b48b2608 (arvados): 3036: API server unit tests pass again after adding uniqueness const...
Peter Amstutz
01:08 pm Revision d2469485 (arvados): 2769: cache API tokens.
The api_client wrapper functions cache user information retrieved from
the API server (the User and ApiClientAuthoriz...
Tim Pierce
12:52 pm Revision 1cf34cb1 (arvados): 3604: Update comment to reflect lack of built-in default.
Tom Clegg
12:51 pm Revision e1405032 (arvados): 3604: Remove unused style.
Tom Clegg
11:42 am Revision 00dd2534 (arvados): Display progress by default when writing to regular files and stderr...
Tom Clegg
11:36 am Revision a9170bf2 (arvados): 3112: add caret to email address dropdown in topnav.
Radhika Chippada
11:33 am Task #3621 (In Progress): Review 2800-pgs branch
Brett Smith
11:33 am Task #3621 (Resolved): Review 2800-pgs branch
commit:c5f8a89d Tom Clegg
11:17 am Story #3620 (Resolved): [Workbench] Display system menu (gear menu) only to admin users.
Radhika Chippada
11:15 am Revision b9b45283 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
11:15 am Task #3619 (Resolved): Reproduce
Tom Clegg
10:13 am Task #3619 (Resolved): Reproduce
Tom Clegg
11:15 am Revision eec85fb5 (arvados): 3112: use alert-success and alert-danger when reporting ajax events ...
Radhika Chippada
10:50 am Bug #3612 (Resolved): [SDKs] arv-get fails "arvados.errors.NotFoundError: Block not found"
See #3493 Tom Clegg
10:10 am Feature #3618: [Workbench] In project view, sort results in the collections (and other) tab by cl...
!53f900a19c654fdf578a3243ab691a92.png! Bryan Cosca
10:09 am Feature #3618 (Resolved): [Workbench] In project view, sort results in the collections (and other...
!http://gyazo.com/53f900a19c654fdf578a3243ab691a92!
If the collections were ordered in some way, it would be easy ...
Bryan Cosca
09:49 am Feature #3617 (New): [SDK] Python SDK should save debug logs in RAM, dump them when there is a fa...
Peter Amstutz
09:48 am Bug #3616 (Resolved): [Workbench] Workbench uses huge amounts of RAM when user downloads a large ...
Peter Amstutz
09:47 am Bug #3344: [Workbench] Cannot [figure out how to] rename a collection created by arv-put with no ...
Sally,
Collections in projects are supposed to have a pencil icon next to them that lets you change the name. How...
Brett Smith
09:39 am Revision 2077dacc (arvados): Merge branch '3441-python-keep-log-level' refs #3441
Peter Amstutz
09:10 am Task #3614 (In Progress): Review 3441-python-keep-log-level
Brett Smith
08:44 am Revision 49ca83c5 (arvados): 3036: Migration will rename rows if necessary to ensure (owner_uuid,...
Peter Amstutz
06:48 am Revision 76127e3a (arvados-dev): enforce the full path requirement in 'install'
Sitaram Chamarty

08/17/2014

05:51 pm Feature #3114: [Workbench] Add a "copy this collection to a project" button to collections page
According to my reading of @git log -p@ and @git log --graph@, commit:ec56622 introduced that @href@ key in order to ... Tom Clegg
05:15 pm Bug #3604: [Workbench] theming support for login and inactive user page is broken (maybe elsewher...
Branch 3604-theme-and-new-user-process at commit:c4c188c
* Fix theme by redirecting to /users/welcome and /user_ag...
Tom Clegg
04:41 pm Bug #3604 (In Progress): [Workbench] theming support for login and inactive user page is broken (...
Tom Clegg
05:14 pm Revision c4c188cd (arvados): 3604: Fix user deactivation test.
Tom Clegg
04:48 pm Task #3615 (Resolved): Review 3604-theme-and-new-user-process
Tom Clegg
04:45 pm Bug #2800: [Crunch] Remove global state in Python SDK
(The issue of using Keep services at multiple sites (@global_client_object@ in @keep.py@) hasn't been addressed yet.) Tom Clegg
04:40 pm Revision 199e61eb (arvados): 3604: Fix tests, and restore ability to view user agreement before c...
Tom Clegg
03:26 pm Revision 7d258618 (arvados): 3604: Fix up profile and redirect handling.
Tom Clegg
02:34 pm Revision e7b360fd (arvados): 3604: Fix user_agreements behavior, update tests to expect redirects.
Tom Clegg
02:10 pm Revision cf233d57 (arvados): 3604: Add test for redirect to welcome page
Tom Clegg
02:10 pm Revision 59522bd2 (arvados): 3604: Verify permission cache behavior in unsetup test
Tom Clegg
02:05 pm Revision 201663b6 (arvados): 3604: Remove test for persistent/cache switch on wrong page.
Tom Clegg
02:02 pm Revision ff024b6b (arvados): 3604: Do not check for notifications if user is not even activated.
Tom Clegg
01:59 pm Revision 8221eaf2 (arvados): 3604: Fix stale permission cache by using destroy instead of delete.
Tom Clegg
01:50 pm Revision 1293b79e (arvados): 3604: Fix theme support for welcome page
Tom Clegg
12:05 am Revision 20378927 (arvados): 3036: Migration adding (owner_uuid, name) uniqueness constraints to
collections, pipeline_templates, pipeline_instances, jobs, groups. Peter Amstutz

08/16/2014

11:44 pm Revision 3f4a7857 (arvados): 3036: API server tests pass
Peter Amstutz
09:24 pm Task #3614 (Resolved): Review 3441-python-keep-log-level
Peter Amstutz
09:23 pm Task #3510 (Resolved): Fix warnings
Peter Amstutz
09:22 pm Revision cd5fd132 (arvados): 3441: Change logging level of nonfatal Keep errors to "debug".
Peter Amstutz
06:56 pm Bug #2800: [Crunch] Remove global state in Python SDK
On 2800-pgs branch at commit:c5f8a89
Interface
* Accept host, token, and insecure arguments in the @api()@ call. ...
Tom Clegg
06:55 pm Revision c5f8a89d (arvados): 2800: Clean up exceptions, variable names, handling of discoveryServ...
Tom Clegg
06:23 pm Revision 2024ca08 (arvados): 2800: Merge branch 'master' into 2800-pgs
Tom Clegg
06:04 pm Bug #3391: [Workbench] Can see job information but cannot access output collection
Fix by making the "show log" link non-clickable (and _look_ non-clickable) when the log page is unreadable.
(It is...
Tom Clegg
05:56 pm Bug #3428 (Rejected): [API] Job reuse filters shouldn't require script and repository to be liste...
Although there are special cases where it's possible to guess with good certainty what the client would have provided... Tom Clegg
04:51 pm Bug #3497 (Closed): [Workbench] Pipeline template page is missing title and description at the top
Duplicate of #2875 Tom Clegg
04:49 pm Bug #3521 (Rejected): Adding permission link fails and cannot find user uuid.
Easier to put the collection in a shared project. Tom Clegg
06:00 am Revision 06f6b319 (arvados): Cleanup, add some error checks, add --skip and --only args.
Tom Clegg
06:00 am Revision 06f6b319 (arvados-dev): Cleanup, add some error checks, add --skip and --only args.
Tom Clegg
02:06 am Revision 0bd1c28b (arvados): Merge branch '2800-python-global-state' into 2800-pgs
Conflicts:
sdk/python/arvados/api.py
Tom Clegg

08/15/2014

11:35 pm Revision b70e4ce5 (arvados): Remove duplicated cleanup commands; the realclean target takes care of
that now.
no issue #
Ward Vandewege
11:35 pm Revision b70e4ce5 (arvados-dev): Remove duplicated cleanup commands; the realclean target takes c...
that now.
no issue #
Ward Vandewege
11:08 pm Revision 92ef9527 (arvados): 3036: Restored normalize_collection_uuids removed in 22457e1
Peter Amstutz
10:37 pm Revision 7d81fa51 (arvados): 3036: Remove include_linked from project contents method because 'na...
are obsolete. Remove tests related to include_linked. Fix docker image lookups. Peter Amstutz
09:15 pm Revision f563d941 (arvados): 3112: trailing white space
Radhika Chippada
09:09 pm Revision d4cc8356 (arvados): 3112: update tests to test ajax success and associated popup changes...
Radhika Chippada
08:15 pm Revision bff45b8c (arvados): 3112: improve errors test to exercise the report issue button.
Radhika Chippada
07:47 pm Revision 9e01d65e (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
06:04 pm Bug #3612 (In Progress): [SDKs] arv-get fails "arvados.errors.NotFoundError: Block not found"
Tom Clegg
06:04 pm Bug #3612 (Resolved): [SDKs] arv-get fails "arvados.errors.NotFoundError: Block not found"
downloading ebf4b1cad4a47d330fe11d167e15cd15+1054 to remote client using python sdk commit:b5a2787 Tom Clegg
05:37 pm Task #3606 (Resolved): Add "report issue" button to fiddlesticks error page
Radhika Chippada
01:43 pm Task #3606 (Resolved): Add "report issue" button to fiddlesticks error page
Needs #3593 resolved. Radhika Chippada
05:36 pm Revision c8a75fee (arvados): 3112: add test to check the existence of "report issue" button in fi...
Radhika Chippada
05:11 pm Revision d10a66b6 (arvados): 3036: Test fixing work in progress.
Peter Amstutz
05:00 pm Feature #3228 (Closed): Keep supports configuration via YAML
Closing as undesirable complexity. Command line flags are easier to script. Calling script can translate from YAML to... Tom Clegg
04:58 pm Revision 213c5692 (arvados): 3112: add "report issue" button to fiddlesticks error page
Radhika Chippada
04:56 pm Revision 17e388d6 (arvados): docker: be a bit smarter in the make clean target, so that we also
accomodate diretories underneath the generated directory.
refs #3551
Ward Vandewege
04:55 pm Feature #2823 (Closed): Standardize on Keep locator format
Tom Clegg
04:53 pm Bug #3452 (Closed): [Workbench] "Choose a project" button should always show up on Collection pages.
Duplicate of #3114 Tom Clegg
04:50 pm Task #3595 (Resolved): Review 3593-workbench-exception-rendering
Applied in changeset arvados|commit:8864cde017b9214b2e5383397b182f0b5f60334c. Brett Smith
03:58 pm Task #3595 (In Progress): Review 3593-workbench-exception-rendering
Radhika Chippada
04:50 pm Bug #3593 (Resolved): [Workbench] Workbench can't render exceptions
Applied in changeset arvados|commit:8864cde017b9214b2e5383397b182f0b5f60334c. Brett Smith
04:42 pm Bug #3593 (New): [Workbench] Workbench can't render exceptions
Brett, thanks for the clarification. I see the issue now.
That settled, LGTM to me. Thanks.
Radhika Chippada
04:31 pm Bug #3593 (In Progress): [Workbench] Workbench can't render exceptions
Brett Smith
04:30 pm Bug #3593: [Workbench] Workbench can't render exceptions
Radhika Chippada wrote:
> The issue could have been resolved without resurrecting user session caching and making a ...
Brett Smith
04:26 pm Bug #3593: [Workbench] Workbench can't render exceptions
Review feedback:
The issue itself is resolved and also the profile handling works (the original issue where we rem...
Radhika Chippada
04:45 pm Revision 8864cde0 (arvados): Merge branch '3593-workbench-exception-rendering'
Closes #3593, #3595. Brett Smith
04:44 pm Revision 126421a5 (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
04:36 pm Revision d3427aea (arvados): 3593: Another round of hardening Workbench's render_exception.
render_exception was counting on session[:user] to help render the
error page. We recently excised that, which is tu...
Brett Smith
04:09 pm Revision c074544b (arvados): 3499: Update Keep tutorial for recent UI changes.
Brett Smith
03:46 pm Task #3611 (Resolved): Review 3499-home-project-docs-wip
Brett Smith
03:45 pm Revision 0ee8ed57 (arvados): 3499: Improve style consistency throughout docs.
* Capitalize Dashboard.
* Article use: "access Workbench," "access the Dashboard."
* Bold references to Workbench U...
Brett Smith
03:45 pm Revision 274f6333 (arvados): 3499: Update pipeline tutorial for recent UI changes.
Brett Smith
03:25 pm Bug #3610 (Resolved): [Workbench] pipeline_instances#show's Components tab clobbers the websocket...
Tom Clegg
03:05 pm Story #3609: [SDKs] arv-run wrapper to interactively submit 'run-command' jobs
Brainstorming:
@/keep/foo/1.baz /keep/foo/2.baz /keep/foo/3.baz@
Example command line:
@arv-run grep /keep/f...
Peter Amstutz
02:47 pm Story #3609 (Resolved): [SDKs] arv-run wrapper to interactively submit 'run-command' jobs
Peter Amstutz
02:37 pm Revision 14f6c56b (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
02:28 pm Task #3608 (Resolved): Review branch: 3112-report-bug
Radhika Chippada
02:27 pm Story #3112: [Workbench] "Report bug on this page" and "Show version detail" buttons on each work...
Notes for review:
- Modal is loaded when button is clicked rather than pre-loading. Since this page changes based ...
Radhika Chippada
01:59 pm Bug #3430 (Resolved): [API] Job find_or_create not advertised in the discovery document
Ward Vandewege
01:58 pm Bug #3439 (Resolved): "All projects" is empty in chooser dialogs
Ward Vandewege
01:52 pm Feature #3607 (Resolved): [Crunch] crunch-dispatch can go into run-pipeline-instance or dispatch ...
Add two flags to crunch dispatch:
--run-pipelines
--dispatch-jobs
Both are boolean, and they default to true...
Ward Vandewege
01:44 pm Task #3598 (Resolved): Add report issue popup
Radhika Chippada
01:42 pm Task #3601 (Resolved): Add "report issue" button to 404 error page
Radhika Chippada
01:41 pm Task #3602 (Resolved): Perform the "report issue" action using ajax
Radhika Chippada
01:39 pm Feature #3605 (Closed): [Workbench] improved dashboard page

High level overview (counts) of:
* pipelines currently running
* jobs currently running
* pipelines recently fi...
Ward Vandewege
01:24 pm Revision 2d816cf5 (arvados-dev): keep is now called keepstore
refs #3551 Ward Vandewege
01:24 pm Revision 2d816cf5 (arvados): keep is now called keepstore
refs #3551 Ward Vandewege
01:22 pm Revision 7808f351 (arvados): 3112: add ajax event handling
Radhika Chippada
12:51 pm Revision 17341ef8 (arvados): Merge branch '3551-go-layout'
refs #3551 Ward Vandewege
12:51 pm Revision 17341ef8 (arvados-dev): Merge branch '3551-go-layout'
refs #3551 Ward Vandewege
10:51 am Task #3516 (In Progress): Update docs
Brett Smith
10:06 am Revision b5a27878 (arvados): gitignore sdk/cli/vendor. refs #3551
Tom Clegg
10:05 am Revision bccccc55 (arvados): Restore trailing newline in manifest format sanity check.
Amends 3cc80b447efcaf416ea4d6857d6d40583e462ff8
No issue #
Tom Clegg

08/14/2014

10:55 pm Revision 1fc1bc43 (arvados): 3036: Adding pre-validation callback to set the portable_data_hash i...
Added validation callback to check that portable_data_hash matches manifest_text. Peter Amstutz
10:53 pm Revision 317952f2 (arvados): 3036: ensure_owner_uuid_is_permitted checks that owner_uuid is a Use...
Added comments on permission logic. Peter Amstutz
10:50 pm Revision bae79452 (arvados-dev): 3551: Install Python and Go bits, force installation of Python t...
Tom Clegg
10:50 pm Revision bae79452 (arvados): 3551: Install Python and Go bits, force installation of Python test ...
Tom Clegg
09:48 pm Revision a2ef5d0f (arvados): 3036: Fixing uuid -> portable_data_hash in collections controller te...
Peter Amstutz
09:47 pm Revision 7dae5c41 (arvados): 3036: Remove obsolete 'name' link tests.
Peter Amstutz
09:18 pm Revision 32468a5b (arvados): 3551: Fix dependency cycle: Install Python SDK, then install+test Go...
Tom Clegg
09:18 pm Revision 32468a5b (arvados-dev): 3551: Fix dependency cycle: Install Python SDK, then install+tes...
Tom Clegg
08:31 pm Revision 35532d9e (arvados-dev): 3551: Test and install keepstore before Python SDK.
Tom Clegg
08:31 pm Revision 35532d9e (arvados): 3551: Test and install keepstore before Python SDK.
Tom Clegg
08:31 pm Revision 1d1cdff6 (arvados-dev): 3551: Clean up temp dir.
Tom Clegg
08:31 pm Revision 1d1cdff6 (arvados): 3551: Clean up temp dir.
Tom Clegg
08:00 pm Revision d9b0e600 (arvados): Merge branch '3551-go-layout'
refs #3551 Ward Vandewege
08:00 pm Revision d9b0e600 (arvados-dev): Merge branch '3551-go-layout'
refs #3551 Ward Vandewege
07:45 pm Revision 45ab2f46 (arvados-dev): 3551: Use mktemp for GOPATH. Update run-build-packages.sh with n...
Tom Clegg
07:45 pm Revision 45ab2f46 (arvados): 3551: Use mktemp for GOPATH. Update run-build-packages.sh with new G...
Tom Clegg
07:29 pm Revision 1ae46a07 (arvados): Merge branch '3551-go-layout'
refs #3551 Ward Vandewege
07:29 pm Revision 1ae46a07 (arvados-dev): Merge branch '3551-go-layout'
refs #3551 Ward Vandewege
07:25 pm Revision 61ed4ec9 (arvados): Merge branch 'master' into 3551-go-layout
Ward Vandewege
07:25 pm Revision 61ed4ec9 (arvados-dev): Merge branch 'master' into 3551-go-layout
Ward Vandewege
07:24 pm Revision 95620c2e (arvados-dev): Make use of the realclean build.sh feature to build the docker i...
no issue # Ward Vandewege
07:24 pm Revision 95620c2e (arvados): Make use of the realclean build.sh feature to build the docker images.
no issue # Ward Vandewege
07:21 pm Revision 2da54dc5 (arvados-dev): 3551: Dry up pass/fail checks with a checkexit() function.
Tom Clegg
07:21 pm Revision 2da54dc5 (arvados): 3551: Dry up pass/fail checks with a checkexit() function.
Tom Clegg
05:13 pm Revision 3d678bcc (arvados-dev): Update Go tests to new layout, rename keepstore, add missing tes...
Tom Clegg
05:13 pm Revision 3d678bcc (arvados): Update Go tests to new layout, rename keepstore, add missing tests f...
Tom Clegg
05:07 pm Revision cc6f3141 (arvados): 3036: Split out logic to determine if a user is actually allowed to ...
uuid into validate_uuid. Fix docker/collection/job tests to use
portable_data_hash instead of uuid where appropriate.
Peter Amstutz
04:41 pm Bug #3604 (Resolved): [Workbench] theming support for login and inactive user page is broken (may...
Ward Vandewege
04:07 pm Revision a968b136 (arvados): 3112: minor label updates
Radhika Chippada
03:40 pm Story #3603 (Closed): [Crunch] Design good Crunch task API, including considerations about "jobs-...
I find there is a lot of boiler plate code that needs to be written in order to get even a basic crunch job running. ... Abram Connelly
03:35 pm Bug #3551 (Resolved): [Keep] Clean up source tree layout
Applied in changeset arvados|commit:244159419c42341baeb388236ad29cc546b7eca1. Anonymous
11:04 am Bug #3551: [Keep] Clean up source tree layout
Tom Clegg wrote:
> > * In the Go tests, is there a way we might reduce duplication of the Go code necessary to fire ...
Brett Smith
10:56 am Bug #3551: [Keep] Clean up source tree layout
Brett Smith wrote:
> * I'm kind of curious why my Go misbehaved too, but I'm not sure it's worth spending more time ...
Tom Clegg
09:42 am Bug #3551: [Keep] Clean up source tree layout
Reviewing commit:2a4e0d9
* I'm kind of curious why my Go misbehaved too, but I'm not sure it's worth spending more...
Brett Smith
03:30 pm Revision 24415941 (arvados): Merge branch '3551-go-layout' closes #3551
Tom Clegg
03:23 pm Revision 740d71d2 (arvados): 3551: Merge branch 'master' into 3551-go-layout
Tom Clegg
03:12 pm Revision f8b650c5 (arvados): 3112: log when an issue is reported
Radhika Chippada
02:48 pm Revision 22457e13 (arvados): 3036: Removed special case normalize_collection_uuids. Removed spec...
'name' links granting read permission. Renamed helper function
"collection_uuid" to "stripped_portable_data_hash" an...
Peter Amstutz
02:47 pm Revision b1863eca (arvados): 3036: Removed special case find_object_by_uuid. Converted some quer...
interact with jobs to use portable_data_hash instead of uuid. Peter Amstutz
02:46 pm Revision 8bc1a5b6 (arvados): 3112: trailing white spaces
Radhika Chippada
02:44 pm Revision d1c1d50d (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
02:43 pm Revision 82386aba (arvados): 3112: report issue works for no user and inactive user cases.
Radhika Chippada
02:42 pm Task #3602 (Resolved): Perform the "report issue" action using ajax
Radhika Chippada
02:41 pm Task #3601 (Resolved): Add "report issue" button to 404 error page
and update tests to test the button. Radhika Chippada
02:40 pm Task #3600 (Resolved): Add integration tests for the new report issue links
Radhika Chippada
02:39 pm Task #3599 (Resolved): Update workbench filter chaining to allow report issue popup and action pr...
Radhika Chippada
02:38 pm Task #3598 (Resolved): Add report issue popup
Radhika Chippada
02:37 pm Task #3597 (Resolved): Add Report Issue Mailer to workbench
And add functional tests. Radhika Chippada
02:36 pm Task #3268 (Resolved): version detail
Radhika Chippada
02:35 pm Task #3431 (Resolved): [Workbench] We need a link / page to contact support in our topnav.
Radhika Chippada
02:34 pm Task #3574 (Resolved): Add source_version to api server config
Radhika Chippada
02:34 pm Task #3596 (Resolved): Add source_version and report email to workbench config
Radhika Chippada
02:20 pm Revision 943eba40 (arvados): Merge branch '3505-virtual-work-dir' refs #3505
Peter Amstutz
02:19 pm Revision 51e6edf7 (arvados): 3036: Removed special case uuid_like_pattern. Removed special case in
resource_class_for_uuid. Removed special cases for "name" links. Peter Amstutz
02:18 pm Revision 6d259978 (arvados): 3036: Removed "add can_read link after creating collection record" l...
Peter Amstutz
02:16 pm Revision 61b31dea (arvados): 3036: Manually migrated collections and name links on test fixtures.
Peter Amstutz
02:15 pm Revision d322fffb (arvados): 3112: add tests for the new show version info and report problem but...
Radhika Chippada
02:14 pm Support #3505: [Sample pipelines] Support science team
commit:5f62b0c looks good to merge. Thanks. Brett Smith
09:02 am Support #3505: [Sample pipelines] Support science team
Reviewing 3505-virtual-work-dir at commit:02d6330. Looks pretty good overall, just a few small comments:
* Would ...
Brett Smith
01:59 pm Revision be3aa4ed (arvados): 3593: Another round of hardening Workbench's render_exception.
render_exception was counting on session[:user] to help render the
error page. We recently excised that, which is tu...
Brett Smith
01:58 pm Task #3595 (Resolved): Review 3593-workbench-exception-rendering
Brett Smith
01:23 pm Revision 5f62b0c0 (arvados): Merge branch 'master' into 3505-virtual-work-dir
Peter Amstutz
01:17 pm Revision 412c3d66 (arvados): 3505: tinker with logging
Peter Amstutz
11:41 am Revision 54e4827b (arvados): 3505: Fix typo in run-command
Peter Amstutz
11:35 am Revision eb6992db (arvados): 3505: Move helper scripts into crunchutil module. In run-command, a...
task.stdin redirection, and renamed save.stdout to task.stdout for consistency.
Stylistic change "x == None" and "x !...
Peter Amstutz
11:15 am Revision 26a7558c (arvados): 3036: More work on migration. Converts collection->collection prove...
Peter Amstutz
10:57 am Bug #3593 (Resolved): [Workbench] Workbench can't render exceptions
@render_exception@ was counting on being able to render user information from the session cache when the API server w... Brett Smith
10:35 am Revision a15dde47 (arvados): 3112: add "report issue" button to 404 error page
Radhika Chippada
10:05 am Revision e4353b27 (arvados): 3551: Revert "3551: When testing keep clients, write keepstore/keepp...
This reverts commit 63871346153fea194b169eec38f6efae3061ebf6.
The default Popen behavior is to use stderr, and that'...
Tom Clegg
09:49 am Revision 36dd208f (arvados): 3551: Remove superfluous chmod(). Umask is 022 here.
Tom Clegg
09:40 am Revision 85186b89 (arvados): 3112: simplify report message send logic
Radhika Chippada
08:58 am Revision a3c8db7d (arvados): 3112: when you experience a git error, that is when you see it's tru...
Radhika Chippada
08:20 am Task #3487 (New): Show all component and job details, and overall timing stats
Phil Hodgson
08:19 am Story #3354: [Workbench] Render description attributes as textile
I will settle on putting the edit icon back to the right then.
content_tag handles nil without complaint, and inde...
Phil Hodgson
08:12 am Revision f82085bd (arvados): 3354: try again with edit (pencil) icon to the _right_ of the editab...
(Neither to the right nor underneath look perfect in all circumstances, but to the right is the better compromise.) Phil Hodgson
08:03 am Task #3592 (New): Handle display of any user's home page with projects#show
Task arose out of commentary on #3114 Phil Hodgson
08:01 am Task #3591 (New): Make chooser html partial DRYer
views/projects/_choose.html.erb and views/application/_choose.html.erb should be DRYer Phil Hodgson
07:58 am Feature #3114: [Workbench] Add a "copy this collection to a project" button to collections page
Indeed, a strange little bug, which I think I fixed in my last commit to this branch. In fact it is javascript that i... Phil Hodgson
07:51 am Revision 74854765 (arvados): 3114: bug fix: when rendering JSON response to a generic #show actio...
Phil Hodgson

08/13/2014

10:45 pm Bug #3588: [Workbench] When looking at a project shared with you (but not owned by you), the brea...
This is a duplicate of #3573 Radhika Chippada
03:56 pm Bug #3588 (Duplicate): [Workbench] When looking at a project shared with you (but not owned by yo...
Peter Amstutz
10:21 pm Revision 39f5ca6f (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
10:20 pm Revision 97e3a42d (arvados): 3112: config settings, mailer, popup display
Radhika Chippada
07:47 pm Story #3354: [Workbench] Render description attributes as textile
Phil Hodgson wrote:
> * Edit icon: in fact I'd added an inline-block so that it would _not_ appear on the next line,...
Tom Clegg
08:51 am Story #3354: [Workbench] Render description attributes as textile
* Edit icon: in fact I'd added an inline-block so that it would _not_ appear on the next line, which I thought looked... Phil Hodgson
07:24 pm Feature #3114: [Workbench] Add a "copy this collection to a project" button to collections page
Phil Hodgson wrote:
> * copied the @data-enable-if-selection disabled@ attributes so that something must be selected...
Tom Clegg
11:16 am Feature #3114: [Workbench] Add a "copy this collection to a project" button to collections page
Just committed to 3114 branch:
* copied the @data-enable-if-selection disabled@ attributes so that something must ...
Phil Hodgson
06:37 pm Bug #3551: [Keep] Clean up source tree layout
At least superficially, go1.2 looks like it shouldn't do what it did to you. See "get.go from version 1.2":https://co... Tom Clegg
04:28 pm Bug #3551: [Keep] Clean up source tree layout
Brett Smith wrote:
> Actually, my version still botches the empty GOPATH case. Try this instead:
Yeah, I caught ...
Tom Clegg
03:44 pm Bug #3551: [Keep] Clean up source tree layout
Tom Clegg wrote:
> Brett Smith wrote:
> > run_test_server will crash with a KeyError if GOPATH isn't set. It will ...
Brett Smith
03:42 pm Bug #3551: [Keep] Clean up source tree layout
Updates at commit:32cecc7
* Fixed paths in keepclient.
* Made keepclient tests pass. (Uncovered and fixed an unrela...
Tom Clegg
10:41 am Bug #3551: [Keep] Clean up source tree layout
Brett Smith wrote:
> run_test_server will crash with a KeyError if GOPATH isn't set. It will also manipulate PATH i...
Tom Clegg
09:29 am Bug #3551: [Keep] Clean up source tree layout
I agree completely that we should try to have our SDKs behave in a way that's familiar to developers of the language.... Brett Smith
06:15 pm Revision d746be84 (arvados): Increase Capybara timeout to accommodate slow test server. No issue #
Tom Clegg
05:09 pm Revision e7d6f7ad (arvados): Report unexpected slurm states as "down". No issue #
Tom Clegg
04:55 pm Task #3548 (Resolved): Update pipeline to use arvados repository once merged
Peter Amstutz
04:54 pm Task #3549 (Resolved): Use GATK 3.2
Peter Amstutz
04:54 pm Task #3488 (Resolved): Review 3373-improve-gatk3-snv-pipeline
Peter Amstutz
04:47 pm Revision 2a4e0d9b (arvados): 3551: Use FileUtils.rm_r so deleting stale generated/{dir} works.
Tom Clegg
04:40 pm Task #3584 (Resolved): Review 3421-wide-project-tables-wip
Applied in changeset arvados|commit:7482410350df49dbddab05448b167bf61f14d71e. Brett Smith
03:07 pm Task #3584 (In Progress): Review 3421-wide-project-tables-wip
Peter Amstutz
12:07 pm Task #3584 (Resolved): Review 3421-wide-project-tables-wip
Brett Smith
04:40 pm Bug #3421 (Resolved): [Workbench] "Rename collection" button on project page is hidden/inaccessib...
Applied in changeset arvados|commit:7482410350df49dbddab05448b167bf61f14d71e. Brett Smith
03:12 pm Bug #3421: [Workbench] "Rename collection" button on project page is hidden/inaccessible if the c...
commit:2ad9c20601673674ad787e2457445b6c1a0e9212
I'm glad you were able to find a good solution. Looks good to me.
Peter Amstutz
04:40 pm Task #3582 (Resolved): Review 3405-pipeline-error-logging-wip
Applied in changeset arvados|commit:a5fbf74ba1454a555f2c74290e2ff08596955bb3. Brett Smith
03:13 pm Task #3582 (In Progress): Review 3405-pipeline-error-logging-wip
Peter Amstutz
04:40 pm Bug #3405 (Resolved): [Workbench] Pipeline runner errors not reported to user.
Applied in changeset arvados|commit:a5fbf74ba1454a555f2c74290e2ff08596955bb3. Brett Smith
04:36 pm Bug #3405: [Workbench] Pipeline runner errors not reported to user.
Peter Amstutz wrote:
> commit:815549686de7aeaff01497bec88e11540ca0ad21
>
> Without actually testing it, on visual...
Brett Smith
04:09 pm Bug #3405: [Workbench] Pipeline runner errors not reported to user.
commit:815549686de7aeaff01497bec88e11540ca0ad21
Without actually testing it, on visual inspection this looks good.
Peter Amstutz
04:39 pm Revision 74824103 (arvados): Merge branch '3421-wide-project-tables-wip'
Closes #3421, #3584. Brett Smith
04:39 pm Revision 4169ee28 (arvados): 3421: Make Workbench project contents tables variable width.
This change will ensure that users can see the "edit name" buttons, by
letting a table row grow as needed to accommod...
Brett Smith
04:37 pm Revision a5fbf74b (arvados): Merge branch '3405-pipeline-error-logging-wip'
Closes #3405, #3582. Brett Smith
04:34 pm Revision b17d7233 (arvados): 3405: Mark pipeline instances failed when they're aborted.
Brett Smith
04:34 pm Revision 884eae85 (arvados): 3405: Log errors about launching pipeline instances.
There's a couple of components to this:
* Do some basic checks on the organization of the pipeline instance
before...
Brett Smith
04:23 pm Revision c7de9fea (arvados): 3551: Remove chmod 755, no longer necessary now that config.rb does ...
Tom Clegg
04:00 pm Bug #3589 (New): [Workbench] Should be able to browse "home project" of other users that are read...
Peter Amstutz
03:36 pm Revision 32cecc78 (arvados): 3551: Set mode of generated files more aggressively (overrule umask).
Tom Clegg
03:22 pm Task #3587 (In Progress): Review 3505-virtual-work-dir
Brett Smith
02:57 pm Task #3587 (Resolved): Review 3505-virtual-work-dir
Peter Amstutz
03:22 pm Revision 76319efd (arvados): 3551: Handle missing GOPATH and multiple-entry GOPATH sensibly.
Tom Clegg
03:13 pm Revision 922da69f (arvados): 3551: Merge branch 'master' into 3551-go-layout
Tom Clegg
03:10 pm Revision 5fcff4c1 (arvados): 3551: When invoking run_test_server.py during tests, pass stderr
through to caller instead of discarding. Tom Clegg
03:02 pm Revision 9ccff207 (arvados): 3551: Behave correctly when Read() yields some data along with the E...
"a Reader returning a non-zero number of bytes at the end of the input
stream may return either err == EOF or err == ...
Tom Clegg
02:44 pm Revision 02d63305 (arvados): 3505: Fixed typo comparison of list against 0 instead of len(list).
Peter Amstutz
02:42 pm Bug #3147 (In Progress): [SDKs] Python clients should automatically retry failed API and Keep req...
Brett Smith
02:34 pm Revision fb3a1997 (arvados): 3551: When invoking run_test_server.py during tests, pass stderr
through to caller instead of discarding. Tom Clegg
02:32 pm Revision 63871346 (arvados): 3551: When testing keep clients, write keepstore/keepproxy logs to
tmp/run_test_server.log instead of discarding. Tom Clegg
02:25 pm Revision 43880152 (arvados): 3505: Adjust order of initialization to reflect potential side effec...
creation) on using functions such as $(glob) in the command. Peter Amstutz
02:16 pm Bug #3586 (Resolved): [API] Job "priority" field defaults to "null", should default to "0"
The "priority" field is used to sort the job queue, and it defaults to null. Unfortunately, the database automatical... Peter Amstutz
02:06 pm Revision 3cc80b44 (arvados): Fix degenerate case exponential runtime in regular expression use by
CollectionReader to validate locators and manifests. no issue # Peter Amstutz
01:41 pm Feature #3585 (Resolved): [Crunch] arv-run-pipeline-instance --template should support a --projec...
Tom Clegg
12:20 pm Task #3577 (Resolved): Review 3457-pysdk-logging-wip
Applied in changeset arvados|commit:dfda463f54b05a5fbc023077584d8681d9e6c96d. Brett Smith
12:20 pm Bug #3457 (Resolved): [SDKs] 'No handlers could be found for logger "arv-get"'
Applied in changeset arvados|commit:dfda463f54b05a5fbc023077584d8681d9e6c96d. Brett Smith
11:20 am Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
Looks great, thank you. Just noticed one thing:... Tom Clegg
10:56 am Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
I pushed all the changes discussed. The branch is ready for another look at commit:c7118f6. Brett Smith
12:15 pm Revision dfda463f (arvados): Merge branch '3457-pysdk-logging-wip'
Closes #3457, #3577. Brett Smith
12:15 pm Revision 37cea605 (arvados): 3457: Revamp Python SDK and tool logging.
The primary goal of this commit is to introduce a dedicated logging
object to the arvados module, which we configure ...
Brett Smith
12:15 pm Revision 348c0d6b (arvados): 3457: Make arv-get display interface messages directly.
The logger isn't appropriate for this. Brett Smith
12:07 pm Revision 2ad9c206 (arvados): 3421: Make Workbench project contents tables variable width.
This change will ensure that users can see the "edit name" buttons, by
letting a table row grow as needed to accommod...
Brett Smith
12:06 pm Task #3553 (In Progress): Review 3551-go-layout
Brett Smith
11:12 am Revision edebf116 (arvados): 3114: When current user, show root/home project rather than user att...
(This is meant to be a compromise due to the fact that a home project's uuid has "user" as its arvados type, rather t... Phil Hodgson
11:09 am Revision ea2fecde (arvados): 3114: bug fix: 'Copy' button is now disabled until a project has bee...
Phil Hodgson
11:04 am Revision a437c40e (arvados): Added virtual working directory "task.vwd" option to run-command. A...
"task.cwd" to set the starting directory. Refactored upload retry logic from
run-command into robust_put.py and modi...
Peter Amstutz
11:02 am Revision d30c3b21 (arvados): 3551: Fix more package paths.
Tom Clegg
10:32 am Revision c7118f62 (arvados): 3457: Make arv-get's logger use more like other tools.
* Don't use the logger for interface messages.
* Demote the "API Collection not found" message to debug level, since...
Brett Smith
10:14 am Revision 49aae946 (arvados): 3457: Fixup: Python logging changes based on review.
Brett Smith
09:32 am Revision 936ee283 (arvados): Update Gemfile to use crunch-job from latest arvados-cli gem. refs #...
Tom Clegg
08:44 am Revision 206d9314 (arvados): 3354: Also render specified attributes as textile when content is re...
Phil Hodgson
08:44 am Revision 13456171 (arvados): 3354: Put edit (pencil) icon _below_ textile rather than to the righ...
Phil Hodgson

08/12/2014

09:34 pm Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
Tom Clegg wrote:
> Yes, that sounds good. The existing logging is more or less aimed at "WARNING or worse = normal u...
Brett Smith
08:56 pm Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
Brett Smith wrote:
> I went back and forth on this. You're right about the logs being muted. That more closely app...
Tom Clegg
07:37 pm Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
Tom Clegg wrote:
> * Would it be too bikeshedly (or too verbose) to ask for a process ID in the log formatter? @%(pr...
Brett Smith
07:07 pm Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
At commit:7653275
Much cleaner, as anticipated.
Just a couple of problems/questions:
* Would it be too bikes...
Tom Clegg
05:44 pm Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
Tom Clegg wrote:
> Brett Smith wrote:
> > * arvados/__init__.py makes a logger object named 'arvados'. When ARVADO...
Brett Smith
04:03 pm Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
Brett Smith wrote:
> * arvados/__init__.py makes a logger object named 'arvados'. When ARVADOS_DEBUG is set, it add...
Tom Clegg
03:30 pm Bug #3457: [SDKs] 'No handlers could be found for logger "arv-get"'
Reviewing commit:eedc160
This patch could muck with our users' Crunch scripts. When ARVADOS_DEBUG is set, it load...
Brett Smith
02:23 pm Bug #3457 (In Progress): [SDKs] 'No handlers could be found for logger "arv-get"'
Tom Clegg
05:51 pm Task #3577 (In Progress): Review 3457-pysdk-logging-wip
Tom Clegg
05:43 pm Task #3577 (New): Review 3457-pysdk-logging-wip
Brett Smith
02:59 pm Task #3577 (In Progress): Review 3457-pysdk-logging-wip
Brett Smith
02:11 pm Task #3577 (Resolved): Review 3457-pysdk-logging-wip
Tom Clegg
05:49 pm Revision 7653275e (arvados): 3457: Fixup: Update a missed logging call.
Brett Smith
05:43 pm Revision 694b8e7d (arvados): 3457: Revamp Python SDK and tool logging.
The primary goal of this commit is to introduce a dedicated logging
object to the arvados module, which we configure ...
Brett Smith
05:03 pm Story #3354: [Workbench] Render description attributes as textile
Notes
* Depending on the shape of the rendered description (e.g., long first line followed by a few short lines of t...
Tom Clegg
04:48 pm Story #3354: [Workbench] Render description attributes as textile
Offering a suggestion in the form of commit commit:41f3658 on this branch:
* 3354: Redirect link#show to "show nam...
Tom Clegg
04:53 pm Revision 3251b50f (arvados): 3036: More work verifying that migration does the right thing.
Peter Amstutz
04:43 pm Revision 41f36588 (arvados): 3354: Redirect link#show to "show named object".
This way, if you put a text link like "foo":{uuid-of-name-link} in a
textile description field, it leads to the named...
Tom Clegg
04:40 pm Revision 51422b1c (arvados): update_node_attributes: be aware of more possible slurm states
refs #3239 Ward Vandewege
04:40 pm Revision 8a43d77d (arvados): Merge branch 'master' into 3112-report-bug
Conflicts:
services/api/config/application.default.yml
Radhika Chippada
04:40 pm Story #3296 (Resolved): [Workbench] Configuration option requires new users to complete a survey/...
Applied in changeset arvados|commit:7d598997ce1851f37ac0ec21c47abc76d5e84277. Radhika Chippada
04:38 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Thanks Brett, for that pointer. I failed to see the lapse and since the method was only used for active users, was no... Radhika Chippada
04:28 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Reviewing commit:5a3d5ac7
Radhika Chippada wrote:
> the last one about "manage account" is no longer invoked if t...
Brett Smith
03:32 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
addressed these concerns. the last one about "manage account" is no longer invoked if the use is not active. Radhika Chippada
11:19 am Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Thanks for all the changes. At this point, I just have small concerns in the Workbench integration tests:
* In or...
Brett Smith
04:38 pm Revision 1adc3603 (arvados): crunch-dispatch: be aware of more possible slurm states
refs #3239 Ward Vandewege
04:38 pm Task #3474 (Resolved): Review branch 3296-user-profile
Radhika Chippada
04:02 pm Task #3474: Review branch 3296-user-profile
if you would like to take another look. Radhika Chippada
04:28 pm Revision 7d598997 (arvados): closes #3296
Merge branch '3296-user-profile' Radhika Chippada
04:25 pm Revision ba30220e (arvados): 3296: fix test issue
Radhika Chippada
04:04 pm Task #3569 (In Progress): Review 3354
Tom Clegg
03:49 pm Revision 5a3d5ac7 (arvados): 3296: fix tests
Radhika Chippada
03:45 pm Bug #3421 (In Progress): [Workbench] "Rename collection" button on project page is hidden/inacces...
Brett Smith
03:10 pm Revision 32af86f5 (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
03:08 pm Revision ee1b698d (arvados): Merge branch 'master' into 3112-report-bug
Radhika Chippada
03:05 pm Revision 95b978d8 (arvados): 3112: add source_version to discovery document.
Radhika Chippada
02:57 pm Revision 71ed41b8 (arvados): Fix repositories.get_all_permissions to report manage, write, and re...
Tom Clegg
02:48 pm Revision 81554968 (arvados): 3405: Mark pipeline instances failed when they're aborted.
Brett Smith
02:41 pm Revision 3f73d113 (arvados): 3405: Log errors about launching pipeline instances.
There's a couple of components to this:
* Do some basic checks on the organization of the pipeline instance
before...
Brett Smith
02:41 pm Task #3582 (Resolved): Review 3405-pipeline-error-logging-wip
Brett Smith
02:30 pm Task #3578 (In Progress): Write db migration
Peter Amstutz
02:30 pm Task #3578 (Resolved): Write db migration
Peter Amstutz
02:30 pm Task #3581 (Resolved): Update workbench
Peter Amstutz
02:30 pm Task #3580 (Resolved): Update tests
Peter Amstutz
02:30 pm Task #3579 (Resolved): Update test fixtures
Peter Amstutz
02:30 pm Story #3531 (Resolved): [Workbench] On projects#show, sort {jobs and pipelines} by date instead o...
Applied in changeset arvados|commit:b6e28fbe905737bd0ea5bda5f4fd74fd259c58b1. Anonymous
01:49 pm Story #3531: [Workbench] On projects#show, sort {jobs and pipelines} by date instead of listing a...
commit:588a450 is good to merge. Thank you. Brett Smith
12:20 pm Story #3531: [Workbench] On projects#show, sort {jobs and pipelines} by date instead of listing a...
Unique element IDs fixed in commit:588a450 Tom Clegg
11:56 am Story #3531: [Workbench] On projects#show, sort {jobs and pipelines} by date instead of listing a...
Brett Smith wrote:
> This version still reverses @objects in all cases, which sorts them descending.
Good point, ...
Tom Clegg
10:18 am Story #3531: [Workbench] On projects#show, sort {jobs and pipelines} by date instead of listing a...
Thanks for all the changes. Just a couple of smaller comments (I hope).
Tom Clegg wrote:
> Brett Smith wrote:
>...
Brett Smith
02:30 pm Story #3036 (In Progress): [API] Use regular uuids instead of content hashes to identify collections
Peter Amstutz
02:25 pm Bug #3576 (Resolved): [API] arv job cancel gets error.
Applied in changeset arvados|commit:6520a31f91a590fe8d559c14e75e6c99a676ba20. Anonymous
02:18 pm Bug #3576 (In Progress): [API] arv job cancel gets error.
Tom Clegg
02:14 pm Bug #3576: [API] arv job cancel gets error.
... Tom Clegg
02:07 pm Bug #3576 (Resolved): [API] arv job cancel gets error.
$ arv job cancel --uuid=qr1hi-8i9sb-ob1khws2gr7s6zu
Error: #<NoMethodError: undefined method `uuid' for nil:NilClass>
Peter Amstutz
02:22 pm Task #3561 (Resolved): Review 3531-sort-jobs-with-pipelines
Tom Clegg
02:19 pm Revision b6e28fbe (arvados): Merge branch '3531-sort-jobs-with-pipelines' closes #3531
Tom Clegg
02:15 pm Revision 6520a31f (arvados): Fix "undefined method `uuid' for nil:NilClass". closes #3576
Tom Clegg
01:50 pm Revision eedc1608 (arvados): 3457: Avoid calling logging.getLogger() before logging.basicConfig().
Otherwise, we get occasional episodes of:
No handlers could be found for logger "arv-get"
Tom Clegg
01:46 pm Task #3575 (Resolved): [Workbench] "Home" project should have hover highlight like other projects
Previously when Workbench rendered a project tree menu, the root project was not selectable, and so it didn't get a h... Brett Smith
01:30 pm Task #3567 (Resolved): Review 3178-discoverable-parameters
Tom Clegg
01:16 pm Revision b00bc4b6 (arvados): Fix regular expression in decompress-all.py refs #3373
Peter Amstutz
01:07 pm Revision 20b2859d (arvados): Fix syntax error in decompress-all.py refs #3373
Peter Amstutz
12:19 pm Revision 588a4505 (arvados): 3531: Pass through tab_pane to reused partials, so element IDs are r...
across tabs. Tom Clegg
12:17 pm Revision 9d76f0c0 (arvados): 3531: Fix ordering of combined results, add test. Anchor "desc" regexp.
Tom Clegg
11:45 am Bug #3373 (Resolved): [Sample pipelines] Improve SNV pipeline to accept example exome fastq data ...
Applied in changeset arvados|commit:c5be0c3abd926adc54e0c1de65e8dfdd25a84ea1. Anonymous
11:27 am Bug #3373: [Sample pipelines] Improve SNV pipeline to accept example exome fastq data (2 pairs of...
Peter Amstutz wrote:
> > * This looks suspiciously like "dtrx failed" is always interpreted as "file is uncompressed...
Tom Clegg
11:42 am Revision c5be0c3a (arvados): Merge branch '3373-improve-gatk3-snv-pipeline' closes #3373
Peter Amstutz
11:42 am Revision 0a53423e (arvados): 3373: Test filename extension before attempting to call dtrx. Non-z...
Peter Amstutz
11:35 am Revision 696822ad (arvados): 3036: More work on migration code. Now updates links table. SQL sy...
Peter Amstutz
11:33 am Revision 53b8734a (arvados): Delete obsolete, undesirable HTML page templates.
Peter Amstutz
10:55 am Task #3574 (Resolved): Add source_version to api server config
Add source_version to application.default.yml and make it available as source_version in discovery doc. Radhika Chippada
10:40 am Story #3112 (In Progress): [Workbench] "Report bug on this page" and "Show version detail" button...
Radhika Chippada
10:20 am Revision 19e913d3 (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
10:15 am Bug #3178 (Resolved): Discovery document does not publish optional parameters "find_or_create", "...
Applied in changeset arvados|commit:57ee96926d2d3d315ece3b2cbfb20d0fe01ab912. Anonymous
09:17 am Bug #3178: Discovery document does not publish optional parameters "find_or_create", "filters", "...
Tom Clegg wrote:
> Now at commit:2bec2ba
This looks good to merge to me. Thanks.
Brett Smith
10:11 am Revision 57ee9692 (arvados): Merge branch '3178-discoverable-parameters' closes #3178
Tom Clegg
10:10 am Bug #3572 (Resolved): [Crunch] 'arv pipeline run --submit --template ...' does not start pipeline...
Applied in changeset arvados|commit:33f848525d46357fbe7669bc9ea09f2f4379f425. Anonymous
10:08 am Bug #3572 (In Progress): [Crunch] 'arv pipeline run --submit --template ...' does not start pipel...
Tom Clegg
10:09 am Revision 33f84852 (arvados): 3572: Set state to RunningOnServer if --submit given. closes #3572
Tom Clegg
10:05 am Bug #3573 (New): [Workbench] When showing a shared project, do not include "Home" in breadcrumbs.
Tom Clegg
09:15 am Bug #3570 (Resolved): [Crunch] With multiple crunch-dispatch processes, race condition causes job...
Applied in changeset arvados|commit:ed1580a38c1aae0910cef83605622a41d927fba3. Anonymous
09:03 am Bug #3570: [Crunch] With multiple crunch-dispatch processes, race condition causes job record to ...
Tom Clegg wrote:
> Now at commit:55db208 -- does this look better?
Yes, please go ahead and merge this. Thanks f...
Brett Smith
09:13 am Task #3571 (Resolved): Review 3570-crunch-race
Tom Clegg
09:12 am Revision ed1580a3 (arvados): Merge branch '3570-crunch-race' closes #3570
Tom Clegg
09:00 am Task #3534 (Resolved): Review 3412-full-collections-index-wip
Applied in changeset arvados|commit:0ce64862c39e93591635f31a47c5b7d4aa0b9a19. Brett Smith
09:00 am Story #3412 (Resolved): [API] Full collection view in list returned by api server
Applied in changeset arvados|commit:0ce64862c39e93591635f31a47c5b7d4aa0b9a19. Brett Smith
08:59 am Revision 0ce64862 (arvados): Merge branch '3412-full-collections-index'
Closes #3412, #3534. Brett Smith
08:59 am Revision 30a74a09 (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
08:52 am Revision 268e630e (arvados): 3296: add span tag to profile message in config to serve as an examp...
Radhika Chippada
08:48 am Revision a4993e59 (arvados): 3412: Clean API Collections controller trailing whitespace.
Brett Smith
08:48 am Revision ddb56f97 (arvados): 3412: Refactor common manifest munging in API Collections controller.
Brett Smith
08:48 am Revision 6ba24a89 (arvados): 3412: Make non-database fields selectable from API server.
This makes it possible to pass method-back field names, like
"data_size" and "files" from Collections, to the select ...
Brett Smith
08:48 am Revision bb3c3a07 (arvados): 3412: Make manifest_text selectable from Collections index API.
Brett Smith
08:41 am Revision a2f138c3 (arvados): 3296: cover the case where prefs was there but no profile in profile...
Radhika Chippada
12:14 am Revision d7581fb1 (arvados): Update more PGP web links. No issue #
Tom Clegg

08/11/2014

11:49 pm Revision b349b49b (arvados): Update PGP download link. No issue #
Tom Clegg
08:27 pm Feature #3114: [Workbench] Add a "copy this collection to a project" button to collections page
Phil Hodgson wrote:
> Okay, I've implemented it as you've described.
Looks great
> * Is it normal that the act...
Tom Clegg
04:14 pm Feature #3114: [Workbench] Add a "copy this collection to a project" button to collections page
Okay, I've implemented it as you've described. Two questions:
* Is it normal that the action button on the chooser...
Phil Hodgson
12:03 pm Feature #3114: [Workbench] Add a "copy this collection to a project" button to collections page
Phil Hodgson wrote:
> I have deactivated the "new project" button that the user might expect to see in the Project s...
Tom Clegg
07:05 pm Bug #3178: Discovery document does not publish optional parameters "find_or_create", "filters", "...
Brett Smith wrote:
> The code looks good, but @_setup_requires_parameters@ seems not to work as intended. When I re...
Tom Clegg
01:14 pm Bug #3178: Discovery document does not publish optional parameters "find_or_create", "filters", "...
Reviewing commit:fd38dca
The code looks good, but @_setup_requires_parameters@ seems not to work as intended. Whe...
Brett Smith
07:01 pm Revision 2bec2ba1 (arvados): 3178: Merge bogus _setup_requires_parameters into existing class met...
Tom Clegg
06:56 pm Story #3412: [API] Full collection view in list returned by api server
Brett Smith wrote:
> Actually, instead of having the method return special cases, I have it generate a full map of A...
Tom Clegg
03:03 pm Story #3412: [API] Full collection view in list returned by api server
Tom Clegg wrote:
> In @services/api/app/controllers/application_controller.rb@
>
> * Could we generalize the "API...
Brett Smith
10:37 am Story #3412: [API] Full collection view in list returned by api server
In @services/api/app/controllers/application_controller.rb@
* Could we generalize the "API response field A requir...
Tom Clegg
06:40 pm Bug #3570 (In Progress): [Crunch] With multiple crunch-dispatch processes, race condition causes ...
(Peter raised the same "overload 111" question but suggested merging, so I merged. Then I saw this comment, so I'm re... Tom Clegg
05:10 pm Bug #3570 (Resolved): [Crunch] With multiple crunch-dispatch processes, race condition causes job...
Applied in changeset arvados|commit:6c91320c3a53ddbe1b81bee8ed6322c20acbd047. Anonymous
04:42 pm Bug #3570: [Crunch] With multiple crunch-dispatch processes, race condition causes job record to ...
Reviewing commit:7ea5d61
I'm concerned we're semantically overloading the number 111. crunch-job both receives th...
Brett Smith
01:24 pm Bug #3570 (Resolved): [Crunch] With multiple crunch-dispatch processes, race condition causes job...
Tom Clegg
06:34 pm Revision 55db2086 (arvados): 3570: Use exit code 75 to mean "temporary locking failure". Add comm...
Tom Clegg
06:24 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Addressed, one more time, the review feedback. The only thing skipped out of these suggestions is the minor changes s... Radhika Chippada
12:17 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Brett Smith wrote:
> * The current branch removes the session user cache from Workbench, so that Workbench doesn't k...
Brett Smith
10:33 am Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Reviewing commit:9e5af4a. I found this version much easier to follow—thanks for spending so much continued time with... Brett Smith
06:21 pm Revision 7b9529d6 (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
06:20 pm Revision 7c4b27bf (arvados): 3296: break the tests into multiple tests
Radhika Chippada
06:00 pm Revision 1626b101 (arvados): 3296: minor updates to profile page display
Radhika Chippada
06:00 pm Bug #3489 (Resolved): [Workbench] Collection chooser starts at "All projects" but doesn't show an...
Applied in changeset arvados|commit:a6010696b246cc43c721a35d56179c629d54e798. Anonymous
03:24 pm Bug #3489: [Workbench] Collection chooser starts at "All projects" but doesn't show any collections.
I think commit:aa923c9 is good to merge. Thanks. Brett Smith
03:12 pm Bug #3489: [Workbench] Collection chooser starts at "All projects" but doesn't show any collections.
Brett Smith wrote:
> * @Group.find?(val).name@ will crash if it fails to find something, since it ends up calling @n...
Tom Clegg
11:08 am Bug #3489: [Workbench] Collection chooser starts at "All projects" but doesn't show any collections.
Reviewing commit:b79c440
* @Group.find?(val).name@ will crash if it fails to find something, since it ends up call...
Brett Smith
05:55 pm Task #3545 (Resolved): Review 3489-indicate-initial-project-filter
Tom Clegg
10:53 am Task #3545 (In Progress): Review 3489-indicate-initial-project-filter
Brett Smith
05:54 pm Revision a6010696 (arvados): Merge branch '3489-indicate-initial-project-filter' closes #3489
Tom Clegg
05:53 pm Story #3531: [Workbench] On projects#show, sort {jobs and pipelines} by date instead of listing a...
Brett Smith wrote:
> * @load_contents_objects@ seems to assume that if we order by @created_at@, it's always @desc@....
Tom Clegg
12:27 pm Story #3531: [Workbench] On projects#show, sort {jobs and pipelines} by date instead of listing a...
Reviewing commit:6060e47
* @load_contents_objects@ seems to assume that if we order by @created_at@, it's always @...
Brett Smith
05:47 pm Revision e8a6a672 (arvados): 3296: split profile config into two parameters: one for fields and o...
Radhika Chippada
05:34 pm Revision 41e77a91 (arvados): 3531: Move the tab_line_buttons sections out of the tab pane partials
into the appropriate "index" and "show" pages.
Until now, we have been predicting which tab pane will be rendered
wi...
Tom Clegg
05:06 pm Revision 6c91320c (arvados): Merge branch '3570-crunch-race' closes #3570
Tom Clegg
05:02 pm Revision c3b48996 (arvados): 3036: Work on migration code for 'name' and 'can_read' links to dist...
Peter Amstutz
04:36 pm Revision f45b07b2 (arvados): 3296: check for prefs_changed instead of cycling through all changes.
Radhika Chippada
04:36 pm Revision 3b98ce7a (arvados): 3531: Make test case less confusing.
Tom Clegg
04:34 pm Revision acba0c0c (arvados): 3531: Add large limit parameter to ensure we get all of the user/gro...
we want (within reason). Tom Clegg
04:33 pm Revision 3b613232 (arvados): crunch_dispatch: when a Node object state is changed to not alloc/comp,
make sure to change the running_job_uuid field to nil.
refs #3239
Ward Vandewege
04:23 pm Task #3571 (In Progress): Review 3570-crunch-race
Brett Smith
01:29 pm Task #3571 (Resolved): Review 3570-crunch-race
Tom Clegg
04:21 pm Revision c7cf7b60 (arvados): 3531: Dry up tab pane rendering. Fix copy-and-paste error on tab_name.
Tom Clegg
04:10 pm Task #3476 (Resolved): Add button and make it work
Phil Hodgson
02:33 pm Task #3476 (In Progress): Add button and make it work
Phil Hodgson
04:10 pm Revision 4eae6236 (arvados): Make Collection page's Copy into project use the standard chooser (r...
Also bug fix: now creates a copy of the link rather than the collection.
Also moved to the tab_line_buttons panel.
Phil Hodgson
03:39 pm Revision 96f92378 (arvados): Non-existant node object is not a fatal state; node manager will create
those objects as needed.
refs #3239
Ward Vandewege
03:37 pm Revision eb430e77 (arvados): Only symbols in the info hash.
refs #3239 Ward Vandewege
03:20 pm Revision 9b5c87a0 (arvados): 3531: Do not assume order is always descending.
Tom Clegg
03:11 pm Revision 78c91071 (arvados): 3412: Remove outdated comment.
Brett Smith
03:10 pm Revision aa923c95 (arvados): 3489: Add test for correct dropdown text.
Tom Clegg
03:07 pm Revision 9389aa16 (arvados): 3489: Add test for correct dropdown text.
Tom Clegg
03:00 pm Revision 198b34d9 (arvados): 3412: Generalize API support for selecting non-database columns.
Per feedback in #3412. This makes the support more general so it's
easier for other models to use.
Brett Smith
02:56 pm Revision 965bf2a5 (arvados): 3489: Degrade nicely if initial filter refers to an unreadable project.
Tom Clegg
02:54 pm Revision cd3a0b27 (arvados): 3489: Remove debug comment.
Tom Clegg
02:20 pm Revision 7f4ff745 (arvados): Fix broken link again. refs #3254
Peter Amstutz
02:20 pm Bug #3572 (Resolved): [Crunch] 'arv pipeline run --submit --template ...' does not start pipeline...
When issuing the following command:... Abram Connelly
02:03 pm Revision 774a5d85 (arvados): Fix broken links. refs #3254
Peter Amstutz
01:45 pm Story #3254 (Resolved): [Documentation] Add a "run one of the sample crunch scripts in local/deve...
Applied in changeset arvados|commit:872cf2e096a7b72722aa76040339a23e962cdf96. Anonymous
01:44 pm Task #3275 (Resolved): Split "writing a crunch script" into before-push and after-push stages
Peter Amstutz
11:56 am Task #3275 (In Progress): Split "writing a crunch script" into before-push and after-push stages
Peter Amstutz
01:43 pm Revision 872cf2e0 (arvados): Merge branch '3254-run-job-locally-docs' closes #3254 refs #3556
Peter Amstutz
01:37 pm Revision 802fd8ec (arvados): 3254: Typo fix "reproducibilty" -> "reproducibility". Changed use o...
Peter Amstutz
01:25 pm Revision 7ea5d616 (arvados): 3570: Do not fail the job when crunch-job loses a locking race durin...
Tom Clegg
01:22 pm Bug #3373: [Sample pipelines] Improve SNV pipeline to accept example exome fastq data (2 pairs of...
Tom Clegg wrote:
> In decompress-all.py
> * I think it would be clearer to do all the error handling for re.match r...
Peter Amstutz
12:55 pm Task #3567 (In Progress): Review 3178-discoverable-parameters
Brett Smith
12:28 pm Revision ac30c34c (arvados): Merge branch 'master' into 3114-copy-to-project
Phil Hodgson
12:24 pm Task #3569 (Resolved): Review 3354
Phil Hodgson
12:24 pm Task #2917 (Resolved): Render description as textile
Phil Hodgson
11:41 am Task #2917 (In Progress): Render description as textile
Phil Hodgson
12:24 pm Task #3522 (Resolved): Add textile extension for detecting Arvados links
Phil Hodgson
07:34 am Task #3522 (In Progress): Add textile extension for detecting Arvados links
Phil Hodgson
12:23 pm Revision 437e25b1 (arvados): Now recognizes Arvados links using Textile (refs #3522, refs #3354)
The logic for detecting them relies on ApplicationHelper#link_to_if_arvados_object
e.g.: "This is not an Arvados coll...
Phil Hodgson
12:20 pm Revision ff39794d (arvados): Bug fix since recent commits to master where Textile was not being r...
Something must have changed in the general JS event handling! Anyway, I now store the textile in a data attribute and... Phil Hodgson
11:56 am Task #3549 (In Progress): Use GATK 3.2
Peter Amstutz
11:44 am Revision a87bae21 (arvados): Merge branch 'master' into 3354-render-textile
Phil Hodgson
11:09 am Task #3561 (In Progress): Review 3531-sort-jobs-with-pipelines
Brett Smith
11:01 am Task #3484 (In Progress): Review 3114
Tom Clegg
11:00 am Task #3557 (Resolved): Review 3212-pipeline-no-reuse
Tom Clegg
10:45 am Task #3557 (In Progress): Review 3212-pipeline-no-reuse
Brett Smith
11:00 am Bug #3212 (Resolved): [Crunch] arv pipeline reuses job results even when --no-reuse is given
Applied in changeset arvados|commit:cedd2b046ddf4d2f819a4d1dedbbe82d4e70e72d. Anonymous
10:51 am Bug #3212: [Crunch] arv pipeline reuses job results even when --no-reuse is given
Please go ahead and merge 3212-pipeline-no-reuse, Tom. Thanks. Brett Smith
11:00 am Bug #3368 (Resolved): [Crunch] '--no-reuse' flag not working?
Applied in changeset arvados|commit:cedd2b046ddf4d2f819a4d1dedbbe82d4e70e72d. Anonymous
10:59 am Revision cedd2b04 (arvados): Merge branch '3212-pipeline-no-reuse' closes #3212
Tom Clegg
10:45 am Bug #3568 (Resolved): [Workbench] "Manage account" page missing breadcrumb.
Peter Amstutz
10:29 am Task #3547 (Resolved): Add Haplotype caller
Peter Amstutz
10:04 am Task #3534 (In Progress): Review 3412-full-collections-index-wip
Tom Clegg
08:20 am Bug #3421 (New): [Workbench] "Rename collection" button on project page is hidden/inaccessible if...
Setting the status back to New for the time being because while I've thought about this, no code has been changed yet... Brett Smith
08:19 am Bug #3421: [Workbench] "Rename collection" button on project page is hidden/inaccessible if the c...
At sprint planning nobody wanted to get too deep into this, so I was given unilateral authority to solve it however I... Brett Smith
08:18 am Bug #3405 (In Progress): [Workbench] Pipeline runner errors not reported to user.
Brett Smith
07:22 am Revision 02c368b2 (arvados): Merge branch 'master' into 3354-render-textile
Phil Hodgson

08/10/2014

06:17 pm Bug #3178 (In Progress): Discovery document does not publish optional parameters "find_or_create"...
Tom Clegg
06:15 pm Task #3567 (Resolved): Review 3178-discoverable-parameters
Tom Clegg
06:15 pm Task #3566 (Resolved): Add missing discovery methods
Tom Clegg
05:20 pm Task #3566 (In Progress): Add missing discovery methods
Tom Clegg
05:20 pm Task #3566 (Resolved): Add missing discovery methods
Tom Clegg
06:15 pm Revision fd38dcaf (arvados): 3178: Discover required parameters for regular CRUD methods, too.
Tom Clegg
05:51 pm Revision bc681e11 (arvados): 3178: Use different discovery doc cache files for different API serv...
Also port "use api even if discovery cache file can't be written"
rescue block from arvados-cli to arvados gem.
Tom Clegg
05:34 pm Revision 1b1248a5 (arvados): 3178: Add missing jobs.create and users.setup parameters to discover...
Tom Clegg
05:07 pm Task #3565 (Resolved): Implement admin "add user to group" and "create/rename groups" interface
Tom Clegg
05:06 pm Task #3564 (Resolved): Design appropriate "join group" interface
Tom Clegg
05:02 pm Task #3563 (Resolved): Write tests
Tom Clegg
05:01 pm Task #3562 (Resolved): Change permission model
Tom Clegg
04:28 pm Task #3561 (Resolved): Review 3531-sort-jobs-with-pipelines
Tom Clegg
03:57 pm Revision 6060e478 (arvados): 3531: Fix test to accommodate more ajax.
Tom Clegg
03:57 pm Revision fe3b22e8 (arvados): 3531: Fix name-editing behavior: preserve name_links when merging re...
Tom Clegg
03:56 pm Revision f8df913d (arvados): 3531: Look up relevant portion of uuid->{user,group} map when loadin...
Tom Clegg
03:11 pm Revision c2cd31f1 (arvados): 3531: Hook infinite-scroll to resize events.
Resizing the browser window can reveal the bottom of an
infinite-scroll element without triggering a scroll event. Li...
Tom Clegg
02:34 pm Task #3474: Review branch 3296-user-profile
Ready for another look. Radhika Chippada
02:33 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...

- Added a “message” to profile config (per Adam’s suggestion during Sprint review)
- In the unlikely scenario wh...
Radhika Chippada
02:30 pm Task #3560 (Resolved): Redirect user back to the profile page after the user fills in all require...
Tom proposed this on Friday and felt that this would be a much better user experience. Radhika Chippada
02:25 pm Revision 9e5af4af (arvados): 3296: profile redirection works perfectly now that session caching i...
Radhika Chippada
02:23 pm Task #3559 (Resolved): Write tests
Tom Clegg
02:23 pm Task #3559 (Resolved): Write tests
Tom Clegg
02:23 pm Task #3558 (Resolved): Interleave jobs and pipelines, sort by created_at only
Tom Clegg
02:22 pm Task #3558 (Resolved): Interleave jobs and pipelines, sort by created_at only
Tom Clegg
02:10 pm Revision c803bd3b (arvados): Merge branch '3296-user-profile' of git.curoverse.com:arvados into 3...
Radhika Chippada
02:09 pm Revision 8fc5d7b3 (arvados): 3531: Add tests for sort order on "jobs and pipelines" tab.
Tom Clegg
02:08 pm Revision f22dc5b8 (arvados): 3531: Remove debug limit.
Tom Clegg
12:07 pm Revision 6f69b8a9 (arvados): 3531: Use dropdown caret instead of down arrow on selection dropdown.
Tom Clegg
12:00 pm Revision b7744c88 (arvados): 3531: Fix horizontal alignment of selectable and non-selectable things.
Tom Clegg
07:19 am Revision 51ab8fad (arvados): 3296: after profile is filled in by user, bring the user back to pro...
Radhika Chippada

08/09/2014

07:44 pm Revision e5337814 (arvados): 3531: Refactor project tab infinite-scroll. Sort jobs and pipelines
together by date, instead of sorting first by type. Tom Clegg
05:24 pm Story #3531 (In Progress): [Workbench] On projects#show, sort {jobs and pipelines} by date instea...
Tom Clegg
05:23 pm Bug #3489 (In Progress): [Workbench] Collection chooser starts at "All projects" but doesn't show...
Tom Clegg
05:15 pm Revision 612d5fd9 (arvados): 3212: Support arv-run-pipeline-instance --no-reuse --submit
Tom Clegg
05:02 pm Bug #3525 (Resolved): [API] Users should have manage permission on their own repositories
Tom Clegg
05:01 pm Task #3530 (Resolved): Migrate existing repo permissions to can_manage
Tom Clegg
04:52 pm Task #3266 (Resolved): Figure out how --no-reuse flag should propagate to crunch-dispatch
Tom Clegg
04:52 pm Task #3557 (Resolved): Review 3212-pipeline-no-reuse
Tom Clegg
04:51 pm Revision 898af1ec (arvados): 3212: Support arv-run-pipeline-instance --no-reuse --submit
Tom Clegg
04:12 pm Revision 65c7f47f (arvados): 3296: Remove session cache of user record to prevent synchronization...
Tom Clegg
03:52 pm Bug #3556 (Closed): [Documentation] Avoid using the term "parallel" when referring to Crunch conc...
Parallel programming uses a kind of concurrency for which Crunch does not offer any support. Terms like "concurrent" ... Tom Clegg
03:50 pm Bug #3555 (Closed): [API] Rename nondeterministic to impure
Tom Clegg
02:08 pm Task #3554 (Resolved): Update jenkins script
Tom Clegg
02:08 pm Task #3553 (Resolved): Review 3551-go-layout
Tom Clegg
02:08 pm Task #3552 (Resolved): Clean up source tree, make sure tests and docker work
Tom Clegg
02:08 pm Task #3552 (Resolved): Clean up source tree, make sure tests and docker work
Tom Clegg
02:06 pm Bug #3551 (In Progress): [Keep] Clean up source tree layout
Tom Clegg
01:55 pm Bug #3551: [Keep] Clean up source tree layout
h2. Testing everything from scratch
CI build should look something like this....
Tom Clegg
12:19 pm Bug #3551: [Keep] Clean up source tree layout
New instructions for hacking/testing/installing Keep utilities:
h3. Install daemons
Set GOPATH (e.g., @GOPATH=~...
Tom Clegg
09:45 am Bug #3551 (Resolved): [Keep] Clean up source tree layout
Objectives
* Conform to Go conventions, see http://golang.org/doc/code.html
* Install keep programs and libraries u...
Tom Clegg
02:06 pm Revision 47e64f91 (arvados): 3551: gitignore python/sdk/tests/tmp
Tom Clegg
02:03 pm Revision 406337ce (arvados): 3551: Make keepproxy tests pass when permission signatures are enabled
in keepstore. Tom Clegg
01:38 pm Revision 4feb9258 (arvados): 3551: Use keep{store,proxy} from the working dir to build keep conta...
instead of running "apt-get install keep". Tom Clegg
01:30 pm Revision 80658e01 (arvados): 3551: Use keep{store,proxy} from the working dir to build keep conta...
instead of running "apt-get install keep". Tom Clegg
12:30 pm Revision d47c009c (arvados): 3551: Fix source tree layout.
* Move $GOPATH out of the source tree. ($GOPATH is a workspace. Go
knows how to import source trees into $GOPATH/sr...
Tom Clegg
11:32 am Revision 5b618008 (arvados): 3296: fix test
Radhika Chippada
11:00 am Revision 87070c34 (arvados): 3551: Fix source tree layout: GOPATH is not in the source tree.
Tom Clegg
10:14 am Revision a5186eee (arvados): 3296: good tests do add value.
Radhika Chippada

08/08/2014

09:47 pm Revision 7a5a8439 (arvados): 3296: update tests
Radhika Chippada
08:57 pm Revision e5e0835b (arvados): 3296: profile notification email setting is now on server
Radhika Chippada
08:55 pm Revision a14f6bf0 (arvados): 3296: send email when profile is created by user. add tests to profi...
Radhika Chippada
07:04 pm Story #3550 (Resolved): [SDKs] arv-run-pipeline-instance supports running jobs locally using arv-...
Tom Clegg
07:01 pm Bug #3212 (In Progress): [Crunch] arv pipeline reuses job results even when --no-reuse is given
Tom Clegg
06:41 pm Story #3254: [Documentation] Add a "run one of the sample crunch scripts in local/development mod...
Just two comments:
* In @/user/tutorials/tutorial-firstscript.html@, a typo: reproducibilty &rarr; reproducibility...
Tom Clegg
06:02 pm Revision e5e28415 (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
06:01 pm Revision 51a0f4eb (arvados): 3296: use update method and remove unnecessary update_profile method
Radhika Chippada
05:40 pm Bug #3546 (Resolved): [API] users have read/write access to all git repos through gitolite.
Applied in changeset arvados|commit:381926c94a3b41d04101f68ec6a33e88fc795254. Anonymous
04:51 pm Bug #3546 (Resolved): [API] users have read/write access to all git repos through gitolite.
Peter Amstutz
05:32 pm Revision 381926c9 (arvados): Fix repositories.get_all_permissions, add tests. closes #3546
Tom Clegg
05:04 pm Task #3549 (Resolved): Use GATK 3.2
Peter Amstutz
05:04 pm Task #3548 (Resolved): Update pipeline to use arvados repository once merged
Peter Amstutz
05:03 pm Task #3547 (In Progress): Add Haplotype caller
Peter Amstutz
05:03 pm Task #3547 (Resolved): Add Haplotype caller
Peter Amstutz
04:56 pm Revision fd7cf521 (arvados): 3373: split-fastq: Fix loop
Peter Amstutz
04:50 pm Task #3544 (Resolved): Indicate preselected project (if any) in chooser instead of always showing...
Applied in changeset arvados|commit:b79c440b6af5cf4855e3fb3fb510b3eb8de1da9c. Anonymous
04:43 pm Task #3544 (In Progress): Indicate preselected project (if any) in chooser instead of always show...
Tom Clegg
04:43 pm Task #3544 (Resolved): Indicate preselected project (if any) in chooser instead of always showing...
Tom Clegg
04:45 pm Task #3545 (Resolved): Review 3489-indicate-initial-project-filter
Tom Clegg
04:45 pm Revision efd13142 (arvados): 3373: split-fastq: Fix regex again
Peter Amstutz
04:45 pm Revision b79c440b (arvados): 3489: Indicate initially selected project in chooser. closes #3544
Tom Clegg
04:42 pm Task #3539 (Resolved): Reproduce problem
Tom Clegg
04:06 pm Task #3539 (Resolved): Reproduce problem
Tom Clegg
04:39 pm Revision b5393c72 (arvados): 3373: Fix wrong regex group
Peter Amstutz
04:33 pm Revision db4c2a1c (arvados): 3373: Fix syntax error in split-fastq
Peter Amstutz
04:32 pm Task #3523: Use fancy editor component for Textile textareas
Also interesting maybe is https://borgar.github.com/textile-js/ for live preview if markItUp doesn't work out. Phil Hodgson
04:15 pm Revision 839f0ec7 (arvados): 3373: more run-command cleanup, global p -> taskp, tweaked logging l...
Peter Amstutz
04:10 pm Story #2769 (Resolved): [Keep] Keep supports DELETE requests
Applied in changeset arvados|commit:6d0b4ad4696fa11a3e940cb731f134a61fc26729. Anonymous
04:07 pm Story #3354 (In Progress): [Workbench] Render description attributes as textile
Tom Clegg
04:07 pm Task #3266 (In Progress): Figure out how --no-reuse flag should propagate to crunch-dispatch
Tom Clegg
04:06 pm Task #3533 (Resolved): Review 2769-disable-delete-flag
Tom Clegg
03:14 pm Task #3533 (Resolved): Review 2769-disable-delete-flag
Tom Clegg
04:04 pm Revision 6d0b4ad4 (arvados): Merge branch '2769-disable-delete-flag' closes #2769
Tom Clegg
04:01 pm Revision cb880a9f (arvados): 3373: arv-run-pipeline-instance: removed .to_json where objects are ...
Peter Amstutz
03:58 pm Revision c6210b84 (arvados): Fix excessive API calls in collection chooser. refs #3489
Tom Clegg
03:55 pm Revision 5edfdafe (arvados): 3373: Switch run-command to use python logging instead of print.
Peter Amstutz
03:51 pm Story #3412: [API] Full collection view in list returned by api server
Branch 3412-full-collections-index-wip implements this and is up for review. Tom mentioned on IRC that @manifest_tex... Brett Smith
03:49 pm Task #3534 (Resolved): Review 3412-full-collections-index-wip
Brett Smith
03:46 pm Revision b1365ce7 (arvados): 3373: split-fastq: merge loops to capture both single and paired fas...
Will now error out if there are fastq files in subdirectories instead of
ignoring them silently. Added comment about...
Peter Amstutz
03:44 pm Revision 6f231c25 (arvados): 3373: decompress-all: cleaned up code a bit. Fail properly with err...
Peter Amstutz
03:42 pm Revision ce92123c (arvados): 3412: Make non-database fields selectable from API server.
This makes it possible to pass method-back field names, like
"data_size" and "files" from Collections, to the select ...
Brett Smith
03:42 pm Revision caf4c362 (arvados): 3412: Refactor common manifest munging in API Collections controller.
Brett Smith
03:42 pm Revision 3c5cb5ef (arvados): 3412: Clean API Collections controller trailing whitespace.
Brett Smith
03:42 pm Revision 73c1fd44 (arvados): 3412: Make manifest_text selectable from Collections index API.
Brett Smith
03:14 pm Task #3273 (Resolved): Add configuration flags for DELETE.
Tom Clegg
03:14 pm Task #3273 (In Progress): Add configuration flags for DELETE.
Tom Clegg
03:13 pm Revision 34f675d7 (arvados): 2769: Add -never-delete command line flag.
Tom Clegg
02:43 pm Task #3272 (New): Cache user authentication tokens
Tom Clegg
02:41 pm Story #3532 (New): [Keep] Keepstore queries API server to verify tokens
* Maintain a cache {token → (is_admin, verified_timestamp, expires_at)} with configurable TTL, so a series of N PUT/D... Tom Clegg
02:39 pm Revision af2a757d (arvados): Add "wait_for_ajax" to avoid race condition. No issue #
Tom Clegg
02:25 pm Support #3505 (In Progress): [Sample pipelines] Support science team
Peter Amstutz
02:13 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Still working on some tweaks. Radhika Chippada
01:58 pm Revision addce205 (arvados): 3296: add integration tests for topnav. also, enable profile as defa...
Radhika Chippada
01:55 pm Task #3529 (Resolved): Review 3527-infer-docker-hash-wip
Applied in changeset arvados|commit:eef298a7cf58771583b255fb0e3e1cfcbcdb6e48. Brett Smith
11:32 am Task #3529 (In Progress): Review 3527-infer-docker-hash-wip
Tom Clegg
10:46 am Task #3529 (Resolved): Review 3527-infer-docker-hash-wip
Brett Smith
01:55 pm Story #3527 (Resolved): [Crunch] Remove check for "docker_image_hash" link when job supplies a ke...
Applied in changeset arvados|commit:eef298a7cf58771583b255fb0e3e1cfcbcdb6e48. Brett Smith
01:49 pm Story #3527: [Crunch] Remove check for "docker_image_hash" link when job supplies a keep locator ...
Ready! Tom Clegg
01:44 pm Story #3527: [Crunch] Remove check for "docker_image_hash" link when job supplies a keep locator ...
Tom Clegg wrote:
> @api/app/models/collection.rb@ requires @dirname=='.'@ to recognize a docker image, but @sdk/cli/...
Brett Smith
11:38 am Story #3527: [Crunch] Remove check for "docker_image_hash" link when job supplies a keep locator ...
@api/app/models/collection.rb@ requires @dirname=='.'@ to recognize a docker image, but @sdk/cli/bin/crunch-job@ does... Tom Clegg
08:42 am Story #3527 (In Progress): [Crunch] Remove check for "docker_image_hash" link when job supplies a...
Brett Smith
01:51 pm Revision eef298a7 (arvados): Merge branch '3527-infer-docker-hash-wip'
Closes #3527, #3529. Brett Smith
01:51 pm Revision e932523a (arvados): 3527: Find Docker images natively inside Collections.
We previously relied on the docker_image_hash link to treat a
Collection as a Docker image. This was safer and simpl...
Brett Smith
01:51 pm Revision 2945ea90 (arvados): 3527: Support using a Docker image from any stream in a Collection.
This makes Docker image detection more consistent between crunch-job
and the API server, and is more user-friendly.
Brett Smith
01:44 pm Revision 338632b2 (arvados): 3527: Support using a Docker image from any stream in a Collection.
This makes Docker image detection more consistent between crunch-job
and the API server, and is more user-friendly.
Brett Smith
01:40 pm Bug #3496 (Resolved): [Workbench] In add pipeline popup, when screen is too narrow, it breaks (se...
Applied in changeset arvados|commit:d36a4308d2e3dd564ddee92347466833c57ccfc9. Anonymous
01:39 pm Revision d36a4308 (arvados): Hide preview pane on narrow screens. closes #3496
Tom Clegg
01:27 pm Task #3524 (Resolved): Review 3499-home-project
Tom Clegg
01:20 pm Story #3499 (Resolved): [Workbench] Objects owned directly by user are visible on a "home" project
Applied in changeset arvados|commit:da85b5f1617656e03535dc490f027d7fae4d702e. Anonymous
11:29 am Story #3499: [Workbench] Objects owned directly by user are visible on a "home" project
Peter Amstutz wrote:
> > Hey. This pipeline instance belongs to your account, but it's not in any of your projects. ...
Tom Clegg
11:23 am Story #3499: [Workbench] Objects owned directly by user are visible on a "home" project
* Move/Delete buttons are fixed.
* Breadcrumbs are fixed
* I tested the "Add data" and "New subproject" buttons and...
Peter Amstutz
11:08 am Story #3499: [Workbench] Objects owned directly by user are visible on a "home" project
Peter Amstutz wrote:
> * The "Move project" and "Delete project" buttons are visible and enabled on the home project...
Tom Clegg
09:01 am Story #3499: [Workbench] Objects owned directly by user are visible on a "home" project
* arv-put finally puts the file in a reasonable place. Very exciting!
* The "Move project" and "Delete project" but...
Peter Amstutz
01:14 pm Revision 0850fa67 (arvados): Update tests and user setup methods. refs #3525
Tom Clegg
01:06 pm Story #3531 (Resolved): [Workbench] On projects#show, sort {jobs and pipelines} by date instead o...
Tom Clegg
11:44 am Revision da85b5f1 (arvados): Merge branch '3499-home-project' closes #3499
Tom Clegg
11:32 am Task #3526 (Resolved): Review 3525-manage-own-repo
Tom Clegg
08:44 am Task #3526 (In Progress): Review 3525-manage-own-repo
Peter Amstutz
11:32 am Task #3530 (Resolved): Migrate existing repo permissions to can_manage
Tom Clegg
11:32 am Revision dc8b590a (arvados-dev): fixing expand-deny-messages
Sebastian Koslowski
11:31 am Revision 0cae143d (arvados): Merge branch '3525-manage-own-repo' refs #3525
Tom Clegg
11:27 am Revision bda338bf (arvados): 3499: Remove "not in any project" warning.
Tom Clegg
11:23 am Bug #3525: [API] Users should have manage permission on their own repositories
Peter Amstutz wrote:
> Nice easy patch, but what about a migration that will fix permissions for existing users?
...
Tom Clegg
08:43 am Bug #3525: [API] Users should have manage permission on their own repositories
Nice easy patch, but what about a migration that will fix permissions for existing users? Peter Amstutz
10:55 am Task #3512 (Resolved): Add a "message" field to config
Radhika Chippada
10:46 am Revision 5acaab6b (arvados): 3527: Find Docker images natively inside Collections.
We previously relied on the docker_image_hash link to treat a
Collection as a Docker image. This was safer and simpl...
Brett Smith
10:26 am Revision 1076b57c (arvados): 3499: Do not show Home in breadcrumbs when viewing dashboard page.
Tom Clegg
10:12 am Bug #3024 (Resolved): [API] Synchronize read permissions and collection name links
Tom Clegg
09:41 am Revision 2d96a5bd (arvados): 3499: Do not show "Sharing" tab on Home project.
Tom Clegg
09:38 am Revision b75aa879 (arvados): 3499: Show "Home" in "My projects" panel on dashboard.
Tom Clegg
09:31 am Revision 299396a4 (arvados): 3499: Do not show "Move" and "Delete" buttons on Home project.
Tom Clegg
09:03 am Task #3503 (In Progress): Document intended behavior and design for projects, collections and per...
Peter Amstutz

08/07/2014

08:01 pm Task #3502 (In Progress): Document expectations for content addressing
Tom Clegg
08:00 pm Revision b2800c21 (arvados): 3499: Merge branch 'master' into 3499-home-project
Tom Clegg
07:59 pm Bug #3525 (In Progress): [API] Users should have manage permission on their own repositories
Tom Clegg
03:59 pm Bug #3525 (Resolved): [API] Users should have manage permission on their own repositories
Tom Clegg
07:58 pm Story #3504 (In Progress): [SDKs] Clients are compatible with #3036
Tom Clegg
07:58 pm Story #3499 (In Progress): [Workbench] Objects owned directly by user are visible on a "home" pro...
Tom Clegg
07:56 pm Revision a69da9e1 (arvados): 3499: Update arv-put usage message to reflect new behavior.
Tom Clegg
07:50 pm Task #3518 (Resolved): arv-put: allow --name without --project-uuid, make up a name if none given
Tom Clegg
08:59 am Task #3518 (In Progress): arv-put: allow --name without --project-uuid, make up a name if none given
Tom Clegg
08:59 am Task #3518 (Resolved): arv-put: allow --name without --project-uuid, make up a name if none given
Tom Clegg
07:47 pm Revision 4e5e8437 (arvados): 3499: Reconcile Python tests to new arv-put "home project" behavior.
Tom Clegg
07:46 pm Revision 21be87a9 (arvados): 3499: Fix Python SDK tests to accept signed blob locators.
Tom Clegg
07:45 pm Revision 61e0cea2 (arvados): 3499: Improve Python SDK's ability to read apiserver's config files.
Use a hardcoded secret in the default "test" configuration, rather
than generating a random string with erb. Otherwis...
Tom Clegg
07:28 pm Feature #3528 (New): Machine-readable API schema that indicates which fields of each object type ...
Peter Amstutz
06:09 pm Bug #3373 (In Progress): [Sample pipelines] Improve SNV pipeline to accept example exome fastq da...
Tom Clegg
06:09 pm Bug #3373: [Sample pipelines] Improve SNV pipeline to accept example exome fastq data (2 pairs of...
In decompress-all.py
* I think it would be clearer to do all the error handling for re.match right away (and emit an...
Tom Clegg
05:06 pm Task #3488 (In Progress): Review 3373-improve-gatk3-snv-pipeline
Tom Clegg
05:05 pm Story #3527 (Resolved): [Crunch] Remove check for "docker_image_hash" link when job supplies a ke...
Peter Amstutz
04:51 pm Task #3520 (Resolved): Review 3036-mutable-collections
Tom Clegg
04:44 pm Task #3520 (In Progress): Review 3036-mutable-collections
Tom Clegg
09:55 am Task #3520 (Resolved): Review 3036-mutable-collections
(TC) This removes the requirement that clients predict the UUID of a collection before calling create(). Aside from s... Tom Clegg
04:46 pm Revision a15f61ae (arvados): Merge branch '3036-mutable-collections' refs #3504
Tom Clegg
04:32 pm Revision 5bbd6abc (arvados): 3036: Merge branch 'master' into 3036-mutable-collections
Tom Clegg
04:32 pm Revision b1ea8228 (arvados): 3036: Remove unnecessary code path.
Tom Clegg
04:01 pm Task #3526 (Resolved): Review 3525-manage-own-repo
Tom Clegg
03:59 pm Revision 3c92c12e (arvados): 3525: Users can manage permissions on their own repositories
Tom Clegg
03:49 pm Task #3524 (Resolved): Review 3499-home-project
At commit:a69da9e Tom Clegg
03:42 pm Task #2917 (Resolved): Render description as textile
Phil Hodgson
03:02 pm Task #2917 (In Progress): Render description as textile
Next iteration is to use something like MarkItUp, as Tom suggested, to make it easier to use. Phil Hodgson
02:52 pm Task #2917 (Resolved): Render description as textile
Phil Hodgson
03:38 pm Task #3523 (New): Use fancy editor component for Textile textareas
E.g. "MarkItUp":http://markitup.jaysalvat.com/examples/textile/ Phil Hodgson
03:01 pm Story #3354: [Workbench] Render description attributes as textile
Note that for Projects this disrupts the way that Projects are displayed on the home page. If Textile is used for a l... Phil Hodgson
02:51 pm Task #3522 (Resolved): Add textile extension for detecting Arvados links
Phil Hodgson
02:48 pm Revision cd1c3d8d (arvados): Can now specify in an arvados model that an element should be render...
For an example of activation of this feature see the Group model, on the description attribute, in this commit. Phil Hodgson
01:55 pm Story #3412 (In Progress): [API] Full collection view in list returned by api server
Brett Smith
01:54 pm Bug #3421 (In Progress): [Workbench] "Rename collection" button on project page is hidden/inacces...
Brett Smith
12:26 pm Bug #3421: [Workbench] "Rename collection" button on project page is hidden/inaccessible if the c...
There isn't one obviously right way to fix this bug. The project contents tables have fixed layouts, meaning each td... Brett Smith
11:27 am Bug #3521 (Rejected): Adding permission link fails and cannot find user uuid.
#!/bin/bash
# usage:
# add_read_perm $USER_UUID $COLLECTION_UUID
USER_UUID=$1
COLLECTION_UUID=$2
arv link create...
Bryan Cosca
11:17 am Task #3506 (In Progress): Help Sally/Brian/Abram
Peter Amstutz
10:58 am Revision 7f15a960 (arvados): 3499: arv-put collections in home project if no --project-uuid speci...
Tom Clegg
10:50 am Bug #3438 (Resolved): [Workbench] When selecting inputs for a pipeline, title bar of collection c...
Applied in changeset arvados|commit:1d1069684c35353f9f0ee4020b76f5dfc7406a47. Brett Smith
10:49 am Revision f00ee875 (arvados): Merge branch 'master' into 3373-improve-gatk3-snv-pipeline
Peter Amstutz
10:44 am Revision 1d106968 (arvados): 3438: Show input title when choosing Collections for pipeline instan...
Closes #3438. Brett Smith
10:44 am Revision fb0585a1 (arvados): "Writing a crunch script" now shows how to run locally, "Running on ...
Peter Amstutz
09:55 am Bug #3482 (Resolved): [Crunch] crunch-job prints the wrong output hash in its log messages (hash ...
Applied in changeset arvados|commit:1865158987c87ef6e6b1c53db65615b17b6324af. Brett Smith
09:54 am Revision 18651589 (arvados): 3482: crunch-job logs locator of job output sans permission hints.
This makes crunch-job log a locator that's consistent with the output
locator that it sets for the job in the databas...
Brett Smith
09:52 am Story #3519 (New): Move permission links to their own table in API server.
Permission links currently have a whole set of special behaviors that prevent them from behaving like "normal" Arvado... Peter Amstutz
09:17 am Revision b14aa29d (arvados): 3296: improve config parameter explanation
Radhika Chippada
09:10 am Revision 862a1fd2 (arvados): Re-disable preview pane in project sharing popup.
This was the original behavior, but was lost in a later merge.
No issue #.
Brett Smith
08:45 am Bug #3436 (Resolved): [Workbench] "Share with users" and "Share with groups" popups should not sh...
Applied in changeset arvados|commit:572400db0f322f365e2bf6849ceebc432a69191a. Brett Smith
08:44 am Revision 572400db (arvados): 3436: Don't show Projects pulldown on project sharing popups.
Closes #3436. Brett Smith

08/06/2014

11:52 pm Revision f3e546e7 (arvados): 3296: profile config edge cases
Radhika Chippada
09:23 pm Revision d7e17c51 (arvados): 3296: add profile also in the notification email
Radhika Chippada
09:11 pm Revision fde712e9 (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
09:09 pm Revision c4248853 (arvados): 3296: add "message" to profile config
Radhika Chippada
07:20 pm Task #3517 (Resolved): Show Home at root of projects tree
Applied in changeset arvados|commit:780560ca57ad92e01edd23301750b8c1623d41db. Anonymous
07:16 pm Task #3517 (In Progress): Show Home at root of projects tree
Tom Clegg
06:40 pm Task #3517 (Resolved): Show Home at root of projects tree
Tom Clegg
07:19 pm Revision 8e76d0a5 (arvados): 3499: Merge branch 'master' into 3499-home-project
Tom Clegg
07:16 pm Revision 780560ca (arvados): 3499: Show Home at root of projects tree. closes #3517
Tom Clegg
07:10 pm Task #3515 (Resolved): Make projects#show page behave properly when uuid is a user_uuid
Applied in changeset arvados|commit:b20cc78fe133ad073edaa1f07effa90297015e99. Anonymous
06:41 pm Task #3515 (In Progress): Make projects#show page behave properly when uuid is a user_uuid
Tom Clegg
05:58 pm Task #3515 (Resolved): Make projects#show page behave properly when uuid is a user_uuid
Tom Clegg
07:10 pm Task #3513 (Resolved): Update breadcrumbs to show Home link to projects/user_uuid
Applied in changeset arvados|commit:e940b6f9ddaaabb5c21f1d0b10754231e74df67f. Anonymous
06:15 pm Task #3513 (In Progress): Update breadcrumbs to show Home link to projects/user_uuid
Tom Clegg
05:55 pm Task #3513 (Resolved): Update breadcrumbs to show Home link to projects/user_uuid
Tom Clegg
07:10 pm Task #3514 (Resolved): Make groups/{user_uuid}/contents return home project contents
Applied in changeset arvados|commit:5f24e9f419222574f16640448be2de731de584b8. Anonymous
06:15 pm Task #3514 (In Progress): Make groups/{user_uuid}/contents return home project contents
Tom Clegg
05:57 pm Task #3514 (Resolved): Make groups/{user_uuid}/contents return home project contents
Tom Clegg
07:07 pm Revision b20cc78f (arvados): 3499: Show home project at /projects/{user_uuid}. closes #3515
Tom Clegg
06:41 pm Revision e940b6f9 (arvados): 3499: Update breadcrumbs. closes #3513
Tom Clegg
06:36 pm Revision 5f24e9f4 (arvados): 3499: groups/{user_uuid}/contents returns home project contents. clo...
Tom Clegg
06:20 pm Story #3388 (Resolved): [Workbench] "Share with groups" option for a project lists all groups, bo...
Applied in changeset arvados|commit:b82d80addf80b9ead7c63f85f72613042b3b2c51. Brett Smith
06:16 pm Revision b82d80ad (arvados): 3388: Workbench only lists user groups when sharing a project with g...
This ensures that projects aren't included in the listing, which is
not useful and confusing. Closes #3388.
Brett Smith
06:11 pm Bug #3436 (New): [Workbench] "Share with users" and "Share with groups" popups should not show Pr...
This is not a duplicate, I lost my mind for a moment there. Apologies. Reopened. Brett Smith
05:33 pm Bug #3436 (Closed): [Workbench] "Share with users" and "Share with groups" popups should not show...
Closed as duplicate. Brett Smith
05:59 pm Task #3516 (Resolved): Update docs
Tom Clegg
05:50 pm Revision 10718020 (arvados): 3296: some cleanup
Radhika Chippada
05:38 pm Task #3323 (Resolved): Help Bryan
Tom Clegg
05:35 pm Task #3265 (Resolved): Curate bugs during the second half of the sprint
Tom Clegg
05:35 pm Task #3494 (Resolved): Review 3444-no-folders
Tom Clegg
11:09 am Task #3494 (In Progress): Review 3444-no-folders
Review completed. Comments added to the story. Radhika Chippada
10:39 am Task #3494 (Resolved): Review 3444-no-folders
Tom Clegg
05:34 pm Revision 9921c586 (arvados): 3296: remove skip_profile and add params[:partial] handling
Radhika Chippada
05:30 pm Bug #3427 (Resolved): [SDK] arv-put does not resume upload
Applied in changeset arvados|commit:7962de491af28d00a9c88412ad4d1e42be83432a. Brett Smith
03:13 pm Bug #3427: [SDK] arv-put does not resume upload
The packaged version is recent enough to have the most recent bugfix relating to resuming, so this needs further inve... Brett Smith
05:28 pm Revision 7962de49 (arvados): 3427: Restore arv-put's resume functionality.
The refactoring in 0d1a48e accidentally introduced a bug where arv-put
wipes its resume cache clean before building t...
Brett Smith
05:25 pm Task #3512 (Resolved): Add a "message" field to config
Add a "message" field to config. This field can be used by the site administrator to configure a message to be displa... Radhika Chippada
05:23 pm Task #3477: When an admin does "login as" a different user, skip profile check.
Tom said it is ok with the admin seeing the profile page in this case. We just want the admin to experience what the ... Radhika Chippada
05:19 pm Story #3235 (Resolved): [Workbench] Site-wide search from top nav
Tom Clegg
05:16 pm Task #3306 (Closed): Replace preview pane with an "expand/collapse" button that shows details (e....
Tom Clegg
05:16 pm Story #3298 (New): [Workbench] Rearrange collection chooser to show a preview (file list) inline ...
Tom Clegg
04:51 pm Story #3511 (Closed): [Documentation] Present an efficient pattern for developing a pipeline temp...
Tom Clegg
04:26 pm Task #3510 (Resolved): Fix warnings
Peter Amstutz
04:23 pm Task #3509 (Resolved): Links to collections in workbench render the "name" field sensibly
Peter Amstutz
04:16 pm Task #3507 (Resolved): Update clients to permit arvados uuids for Collections
Peter Amstutz
04:14 pm Bug #3485 (Closed): [Workbench] Searching entire database is too slow/doesn't work
duplicate of #3149 Tom Clegg
04:14 pm Task #3506 (Resolved): Help Sally/Brian/Abram
Peter Amstutz
04:08 pm Support #3505 (Resolved): [Sample pipelines] Support science team
Tom Clegg
03:56 pm Story #3411: [API] Implement Trash behavior using collection expiration
Needs to be exhaustively tested Peter Amstutz
03:52 pm Story #3270 (Resolved): [Workbench] Set up infrastructure for user experiments
Tom Clegg
03:41 pm Story #3504 (Resolved): [SDKs] Clients are compatible with #3036
Tom Clegg
03:33 pm Revision 8514f291 (arvados): 3296: profile path routing
Radhika Chippada
03:32 pm Task #3503 (Resolved): Document intended behavior and design for projects, collections and permis...
Peter Amstutz
03:32 pm Task #3502 (Resolved): Document expectations for content addressing
Tom Clegg
03:04 pm Feature #3501 (Closed): Ability to run one pipeline over a set of inputs
Peter Amstutz
03:02 pm Bug #3500 (Resolved): docker --rm not always cleaning up containers correctly.
Peter Amstutz
02:50 pm Story #3499 (Resolved): [Workbench] Objects owned directly by user are visible on a "home" project
Provide a "Home" project page that shows objects with @owner_uuid == current_user.uuid@. This allows the user to find... Peter Amstutz
02:20 pm Story #3254 (In Progress): [Documentation] Add a "run one of the sample crunch scripts in local/d...
Peter Amstutz
02:19 pm Support #3320 (Resolved): [Sample Pipelines] Assist pipeline porting efforts in the science team
Peter Amstutz
02:19 pm Bug #3373 (Resolved): [Sample pipelines] Improve SNV pipeline to accept example exome fastq data ...
Peter Amstutz
02:07 pm Bug #3415 (Resolved): [SDKs] Report the server-provided error message when API calls fail in Pyth...
Tom says that he considers this story resolved with the merge. Brett Smith
01:11 pm Task #3337 (Resolved): review 3219-further-docker-improvements
Ward Vandewege
11:55 am Feature #3463 (Resolved): [workbench] add e-mail address to the user list in the sharing dialog
Applied in changeset arvados|commit:c29fc69a571bc2e4a4e450a09d94adbb305633bd. Anonymous
11:48 am Feature #3463: [workbench] add e-mail address to the user list in the sharing dialog
LGTM Tom Clegg
11:49 am Revision c29fc69a (arvados): Merge branch '3463-make-sharing-dialog-with-users-more-useful' close...
Tom Clegg
11:48 am Task #3464 (Resolved): review #3463
Tom Clegg
11:45 am Bug #3444 (Resolved): [API] Get rid of obsolete "folder" usage in API and Workbench (after 249979...
Applied in changeset arvados|commit:3af6ef2d42e3e6efb3ea8e1f32d34293f9b1011e. Anonymous
11:10 am Bug #3444: [API] Get rid of obsolete "folder" usage in API and Workbench (after 249979c is merged)
Just a couple places where we have folder in use as listed below:
services/api/app/models/link.rb: # A user can g...
Radhika Chippada
10:16 am Bug #3444 (In Progress): [API] Get rid of obsolete "folder" usage in API and Workbench (after 249...
Tom Clegg
11:41 am Feature #3498 (New): Counting the number your pipelines were used by unique users
I think it would be cool to show how many unique people saw/used your pipeline. You would be able to see how useful y... Bryan Cosca
11:37 am Revision 3af6ef2d (arvados): Merge branch '3444-no-folders' closes #3444
Tom Clegg
11:37 am Revision fca9bd08 (arvados): 3444: Update documentation referring to obsolete group_class=folder
Tom Clegg
11:36 am Support #3263 (Resolved): [Support] Curate bug reports
Added comments / questions to a few bugs. Things looked clear enough to me. Radhika Chippada
11:22 am Bug #3482: [Crunch] crunch-job prints the wrong output hash in its log messages (hash of manifest...
This also leads to manifests getting stored in Keep that have Keep access tokens in them, which is wrong. Peter Amstutz
10:56 am Bug #3497 (Closed): [Workbench] Pipeline template page is missing title and description at the top
Peter Amstutz
10:52 am Task #3492 (Resolved): Add title and description fields to pipeline template schema doc
Peter Amstutz
10:23 am Task #3492 (In Progress): Add title and description fields to pipeline template schema doc
Peter Amstutz
09:33 am Task #3492 (Resolved): Add title and description fields to pipeline template schema doc
Tom Clegg
10:52 am Bug #3372 (Resolved): [Sample pipelines] Add title and description fields to user-provided input ...
Peter Amstutz
10:52 am Bug #3496 (Resolved): [Workbench] In add pipeline popup, when screen is too narrow, it breaks (se...
Ward Vandewege
10:52 am Revision fc68033c (arvados): Merge branch '3372-update-pipeline-template-schema-docs' refs #3372
Peter Amstutz
10:51 am Story #3057 (Resolved): [Sample pipelines] Example pipelines should have link_name for all of the...
Peter Amstutz
10:50 am Task #3495 (Resolved): Add link_name to GATK3 pipeline
Peter Amstutz
10:50 am Task #3495 (Resolved): Add link_name to GATK3 pipeline
Peter Amstutz
10:50 am Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Comments from reviewing commit:ff2e08f:
Generally speaking, I feel like the current branch does a lot of work to t...
Brett Smith
10:49 am Task #3471 (Resolved): Add title and search_for for GATK pipeline inputs.
Peter Amstutz
10:48 am Revision 5ce1225b (arvados): Add documentation to PipelineTemplate schema for title, description,...
Peter Amstutz
10:40 am Revision 2bf92735 (arvados): 3444: Remove support for obsolete group_class=folder
Tom Clegg
10:32 am Revision 2d850873 (arvados): Merge branch 'master' into 3373-improve-gatk3-snv-pipeline
Peter Amstutz
10:10 am Task #3447 (Resolved): Individual files in search preview should not be clickable: you can't do a...
Tom Clegg
09:51 am Task #3447 (In Progress): Individual files in search preview should not be clickable: you can't d...
Tom Clegg
10:09 am Revision 406dd530 (arvados): 3235: Do not highlight file rows in preview pane. Tone down indentat...
Tom Clegg
09:50 am Task #3267 (Resolved): Review 3235
Tom Clegg
09:49 am Task #3420 (Resolved): Search modal bugs
Tom Clegg
08:33 am Story #3491 (New): [Keep] Support transparent compression of blocks in Keep
Support automatic compression of blocks in the Keep server. Proposed design:
* Keep server can accept PUT blocks ...
Peter Amstutz

08/05/2014

11:01 pm Story #3490 (New): [Workbench] Create and edit pipeline templates
Goals:
* Quicker to debug pipeline templates (if Workbench is used to run tests)
* Friendlier validation (@arv edit...
Peter Amstutz
10:53 pm Story #3347: [Crunch] Run dev (and real) jobs using a syntax as close as possible to "python foo....
I don't understand what this story is saying at all. Peter Amstutz
10:33 pm Bug #3489 (Resolved): [Workbench] Collection chooser starts at "All projects" but doesn't show an...
Peter Amstutz
10:32 pm Bug #3405: [Workbench] Pipeline runner errors not reported to user.
Similar problem if it tries to run a component with a required parameter is missing. Peter Amstutz
10:29 pm Story #3036: [API] Use regular uuids instead of content hashes to identify collections
How does this interact with crunch? Do they continue to use manifest hashes, or switch to using uuids? Peter Amstutz
10:18 pm Task #3471 (In Progress): Add title and search_for for GATK pipeline inputs.
Peter Amstutz
09:55 am Task #3471 (Resolved): Add title and search_for for GATK pipeline inputs.
Peter Amstutz
10:18 pm Task #3488 (Resolved): Review 3373-improve-gatk3-snv-pipeline
Peter Amstutz
10:17 pm Task #3417 (Resolved): Split by read pair, perform parallel alignment, merge bam files
Peter Amstutz
10:17 pm Story #3254: [Documentation] Add a "run one of the sample crunch scripts in local/development mod...
To some extent this already exists: http://doc.arvados.org/user/topics/tutorial-job-debug.html
However I see the b...
Peter Amstutz
10:07 pm Story #3057: [Sample pipelines] Example pipelines should have link_name for all of the default in...
I can't even figure out what link_name even means in this context. The "name" link that associates a collection with... Peter Amstutz
08:28 pm Story #3235: [Workbench] Site-wide search from top nav
Tom, I am aware that you are thinking of doing the search on server for next sprint. I wanted to leave a note support... Radhika Chippada
08:03 pm Revision ff2e08fb (arvados): 3296: check profile if request method is get.
Radhika Chippada
05:13 pm Task #3487 (Resolved): Show all component and job details, and overall timing stats
Phil Hodgson
05:12 pm Story #3187 (In Progress): [Workbench] Better information and features on "show pipeline instance...
Phil Hodgson
04:57 pm Revision 57e0202f (arvados): Disable chunking
Peter Amstutz
04:54 pm Bug #3486 (Resolved): [DRAFT] [Crunch] Cannot have script parameter value of "false" because arv-...
Perhaps give warning or error when someone uses the ambiguous parameter form.
Bad:
* ...
Peter Amstutz
04:45 pm Task #3478 (Resolved): Review 3415-py-sdk-api-errors-wip
Applied in changeset arvados|commit:4eafb2b779b5048c5b5ecb04711c853a974e5796. Brett Smith
03:28 pm Task #3478 (In Progress): Review 3415-py-sdk-api-errors-wip
Radhika Chippada
03:26 pm Task #3478 (Resolved): Review 3415-py-sdk-api-errors-wip
Brett Smith
04:44 pm Revision e50d4042 (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
04:42 pm Revision 4eafb2b7 (arvados): Merge branch '3415-py-sdk-api-errors-wip'
Refs #3415. Closes #3478. Brett Smith
04:34 pm Bug #3415: [SDKs] Report the server-provided error message when API calls fail in Python SDK
Things looked good to me. LGTM Radhika Chippada
08:25 am Bug #3415 (In Progress): [SDKs] Report the server-provided error message when API calls fail in P...
Brett Smith
04:27 pm Bug #3485 (Closed): [Workbench] Searching entire database is too slow/doesn't work
Workbench search is (apparently) still filtering on the client side. This makes it unusable because it takes so long... Peter Amstutz
04:21 pm Feature #3114: [Workbench] Add a "copy this collection to a project" button to collections page
Also doesn't seem to give the copied collection a name. In any case, if I'm on the right track, I can continue down t... Phil Hodgson
04:13 pm Feature #3114 (In Progress): [Workbench] Add a "copy this collection to a project" button to coll...
I have deactivated the "new project" button that the user might expect to see in the Project selector dropdown. Do we... Phil Hodgson
04:17 pm Story #2769: [Keep] Keep supports DELETE requests
> * Respond 403 Forbidden if the token is valid (users.get responds 200) but does not pass is_admin/scopes verificati... Tim Pierce
04:15 pm Task #3484 (Resolved): Review 3114
Phil Hodgson
04:15 pm Task #3476 (Resolved): Add button and make it work
Phil Hodgson
04:13 pm Task #3476 (In Progress): Add button and make it work
Phil Hodgson
02:58 pm Task #3476 (Resolved): Add button and make it work
Phil Hodgson
04:13 pm Revision 36c36077 (arvados): Addition of button that copies the current collection to a specified...
Not positioned anywhere yet: I just slapped it onto the top of the page. Phil Hodgson
04:10 pm Bug #3483 (Closed): [Keep] Keep uses appropriate HTTP status codes for failed DELETE requests
When a DELETE request fails because a call to the API server could not be executed successfully, the HTTP status retu... Tim Pierce
04:10 pm Revision f2263977 (arvados): Chunking fastq seems to work, but is very slow.
Peter Amstutz
04:03 pm Bug #3482 (Resolved): [Crunch] crunch-job prints the wrong output hash in its log messages (hash ...
When a job completes, crunch-job prints out the output for the job. This can include a manifest, which is automatica... Peter Amstutz
03:29 pm Task #3474 (In Progress): Review branch 3296-user-profile
Brett Smith
01:42 pm Task #3474 (Resolved): Review branch 3296-user-profile
Radhika Chippada
03:18 pm Revision f9d2cd96 (arvados): 3415: API exceptions from Python SDK include more error information.
The apiclient module doesn't give us a lot of opportunities to
customize error handling. Request objects can have re...
Brett Smith
03:12 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Adjusted the story point assignment to reflect the true amount of work involved in implementing this story. Radhika Chippada
03:11 pm Story #3296: [Workbench] Configuration option requires new users to complete a survey/form before...
Branch ready for review.
All items listed are addressed.
In addition, addressed one more issue not listed. This...
Radhika Chippada
03:06 pm Task #3477 (Resolved): When an admin does "login as" a different user, skip profile check.
Radhika Chippada
03:05 pm Task #3477: When an admin does "login as" a different user, skip profile check.
Addressed in commit 602a0e46ee210602bb9606695808f7035e1336d9 Radhika Chippada
03:05 pm Task #3477 (Resolved): When an admin does "login as" a different user, skip profile check.
Otherwise, after "login as" a different user, the profile page will be displayed. And, this needs to be filled in bef... Radhika Chippada
02:59 pm Revision 602a0e46 (arvados): 3296: When invoking sudo operations, skip profile check. Profile che...
Radhika Chippada
02:32 pm Revision 1c61d259 (arvados): 3296: save button placement
Radhika Chippada
02:20 pm Revision d7dc4d60 (arvados): 3296: display read-only email, first name, last name, and identity u...
Radhika Chippada
02:15 pm Revision db783c02 (arvados): 2769: ask API server for user's admin status
api_client.go implements new methods IsAdmin and HasUnlimitedScope,
which use the sdk.ArvadosClient to consult the AP...
Tim Pierce
01:59 pm Task #3475 (In Progress): Consult API server for user's admin status and scopes.
Tim Pierce
01:59 pm Task #3475 (In Progress): Consult API server for user's admin status and scopes.
To determine whether a user is authorized to delete blocks, Keep must ask the API server for their user record and fo... Tim Pierce
01:40 pm Bug #3472: arv-keepdocker reports "no --project-uuid" error but doesn't accept --project-uuid
Peter, looks like you are missing a space character "keepdocker" in the title of this story. Please add. Thanks. Radhika Chippada
12:08 pm Bug #3472 (Resolved): arv-keepdocker reports "no --project-uuid" error but doesn't accept --proje...
... Peter Amstutz
01:38 pm Revision 290274d8 (arvados): arvados.LOCATOR
Peter Amstutz
01:37 pm Revision 86f97fe1 (arvados): import string
Peter Amstutz
01:36 pm Revision a73069f4 (arvados): Fix syntax error
Peter Amstutz
01:35 pm Revision 363d1283 (arvados): Check for None
Peter Amstutz
01:29 pm Task #3156 (Resolved): [API] Send e-mail to admin the first time a user's profile data is saved
Radhika Chippada
01:29 pm Revision d94d24f8 (arvados): Working on split-fastq to actually split the fastq file.
Peter Amstutz
01:29 pm Task #3154 (Resolved): Provide an "edit profile" page for editing the current_user.prefs[:profile...
Radhika Chippada
01:28 pm Task #3155 (Resolved): redirect regular workbench pages to the "edit profile" page if any require...
Radhika Chippada
01:25 pm Revision 85ee7f10 (arvados): 3296: send notification email when the user first creates profile, p...
Radhika Chippada
01:23 pm Revision 46f565cf (arvados): 3415: Python SDK can pass extra arguments to the client constructor.
This gives API authors more flexibility, and lets us write tests using
apiclient's built-in mock functionality. This...
Brett Smith
01:01 pm Revision 9d476c8e (arvados): Use rvm-exec to run gem to install Arvados cli. Also install dtrx.
Peter Amstutz
12:22 pm Story #3473 (New): Ability to mark one's own projects as read-only to avoid changing it by accident.
Peter Amstutz
11:02 am Feature #3402: If a pipeline/job is in a project, it would be nice if the breadcrumbs reflected t...
Partially. If I go to a project, then the jobs and instances tab, then click on a pipeline, then click on a job the p... Sarah Guthrie
10:58 am Bug #3397 (Closed): Unable to view or download keep data (502 Bad Gateway error)
Error has not re-occurred Sarah Guthrie
10:47 am Revision 692f03de (arvados): 3296: tests passing and addressed trailing white spaces
Radhika Chippada
10:15 am Revision dd89205a (arvados): 3321: Add test for rendering unusual pipeline templates.
I wrote this along with the rest of the code for refs #3321, but
failed to commit it.
Brett Smith
10:10 am Revision 91d83dc2 (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
10:07 am Revision 14878e2c (arvados): 3296: add comments to applicaiton.defaults.yml describing the user_p...
Radhika Chippada
09:14 am Bug #3470: [Workbench] Ajax updated pages don't interact correctly with browser history.
I get the following behavior on Firefox/Iceweasel 30.0
# Run a pipeline to completion. The page auto-refreshes un...
Peter Amstutz
09:08 am Bug #3470 (Closed): [Workbench] Ajax updated pages don't interact correctly with browser history.
Peter Amstutz
08:58 am Revision cdb015d7 (arvados): Renamed "job.src" to "job.srcdir", "job.id" to "job.uuid", and "task...
Peter Amstutz
08:44 am Revision ba74da92 (arvados): Fixed link to installing python sdk page. refs #3232
Peter Amstutz

08/04/2014

09:49 pm Revision b3d92b09 (arvados): 3296: redirect to the page that resulted in manage profile page
Radhika Chippada
09:37 pm Revision d0930bfe (arvados): Merge branch 'master' into 3296-user-profile
Radhika Chippada
09:36 pm Revision d82509cf (arvados): 3296: manage profile page added
Radhika Chippada
05:10 pm Task #3392 (Resolved): Review 3232-user-guide-updates
Peter Amstutz
05:08 pm Task #3469 (New): Ruby not in default path for arvados/base image
Peter Amstutz
05:05 pm Story #3232 (Resolved): [Documentation] Rearrange doc site so "run a sample pipeline in Workbench...
Applied in changeset arvados|commit:dbc08507876d9e2f4f3c28b4f76a345c829ab6cd. Anonymous
01:57 pm Story #3232: [Documentation] Rearrange doc site so "run a sample pipeline in Workbench" comes bef...
- Writing a pipeline template page
Template creation passed. I saw failures when I tried to run an instance of thi...
Radhika Chippada
05:02 pm Revision dbc08507 (arvados): Merge branch '3232-user-guide-updates' closes #3232
Peter Amstutz
04:58 pm Revision dc8150c8 (arvados): Added explicit instructions on sample data to use for tutorial pipel...
Peter Amstutz
04:42 pm Revision fdd0351c (arvados): $(link ...) now expects complete path.
Peter Amstutz
04:30 pm Task #3272 (In Progress): Cache user authentication tokens
Tim Pierce
04:30 pm Task #3271 (Resolved): Implement DELETE request
Tim Pierce
04:30 pm Task #3422 (Resolved): Review 2769-keep-delete-request
Tim Pierce
04:21 pm Revision b789ede3 (arvados): Merge branch '2769-keep-delete-request'
Refs #2769. Tim Pierce
04:12 pm Feature #3467 (Closed): [Crunch] Specify human readable name for pipeline instance output
Replace the "output_is_persistent" flag. Sarah Guthrie
03:41 pm Revision c96db876 (arvados): Merge branch 'master' into 3373-improve-gatk3-snv-pipeline
Peter Amstutz
03:39 pm Revision e9509c50 (arvados): Merge branch '3373-improve-gatk3-snv-pipeline' of git.qr1hi.arvadosa...
Peter Amstutz
03:38 pm Revision 22383b73 (arvados): Simplified collection-merge. Added comments to collection-merge and...
Peter Amstutz
03:36 pm Revision 1c5b0ee2 (arvados): Works now
Peter Amstutz
03:06 pm Revision 2399e208 (arvados): fix parameters
Peter Amstutz
02:55 pm Revision 92f63fe1 (arvados): Decompress-all wip
Peter Amstutz
02:03 pm Story #3234 (Resolved): [Documentation] Update tutorials to match current code.
Performed reviewing Peter's 3232 branch as part of this story work. Radhika Chippada
10:02 am Story #3234 (In Progress): [Documentation] Update tutorials to match current code.
Radhika Chippada
01:45 pm Bug #3466 (Resolved): arv-get failing to download entire file from a collection.
Applied in changeset arvados|commit:583e9e1e9672d3eb0a317d371acbb83b9ab840ec. Anonymous
11:15 am Bug #3466 (In Progress): arv-get failing to download entire file from a collection.
... Peter Amstutz
11:13 am Bug #3466 (Resolved): arv-get failing to download entire file from a collection.
Peter Amstutz
01:43 pm Revision 583e9e1e (arvados): Fix bug in StreamFileReader incorrectly updating self._filepos resul...
incomplete file reads. closes #3466 Peter Amstutz
01:05 pm Bug #3443 (Resolved): [API] Read permissions for collections should be obtainable via name links
Peter Amstutz
01:05 pm Bug #3442 (Resolved): Can re-use job where the job is readable but the output collection isn't.
Peter Amstutz
01:01 pm Story #2769: [Keep] Keep supports DELETE requests
Misha Zatsman wrote:
> Ugh, sorry about that, now I get what the semicolon ok is for. I was only focusing on the set...
Tim Pierce
12:55 pm Story #2769: [Keep] Keep supports DELETE requests
Misha Zatsman wrote:
> Tim Pierce wrote:
> > Misha Zatsman wrote:
> > > volume.go:
> > >
> > > [...]
> > >
>...
Misha Zatsman
12:09 pm Story #2769: [Keep] Keep supports DELETE requests
Tim Pierce wrote:
> Misha Zatsman wrote:
> > volume.go:
> >
> > [...]
> >
> > I don't understand the purpose ...
Misha Zatsman
11:28 am Revision 66525e15 (arvados): Fixed "Tutorial align using bwa mem and SortSam" template. Tweaked
instructions for creating and editing template. Fixed docker image in template
provided on "writing a crunch script".
Peter Amstutz
09:45 am Feature #3402: If a pipeline/job is in a project, it would be nice if the breadcrumbs reflected t...
Hi, do you mean hitting the back button or project link (from the job / instance viewing page) takes you to the "Data... Radhika Chippada
09:40 am Bug #3397: Unable to view or download keep data (502 Bad Gateway error)
Can you please add any other details you have about this such as the environment etc. Thanks. Radhika Chippada
09:21 am Bug #3369: [Documentation] CLI usage page should help you install the CLI tools on your workstation
Tom, can you please add which page and other details. Not sure if you are referring to "http://doc.arvados.org/sdk/cl... Radhika Chippada
04:25 am Bug #3465 (Resolved): [SSO] Research requirements to upgrade SSO codebase to use oauth2 (or openi...
https://developers.google.com/accounts/docs/OAuth2Login Ward Vandewege
04:22 am Bug #3363 (Resolved): [Docker] quick fix for SSO - google openid has been deprecated, default to ...
Ward Vandewege

08/03/2014

05:54 pm Revision 80b502ea (arvados): Merge branch '3363-docker-add-option-to-use-auth.curoverse.com'
refs #3363 Ward Vandewege
05:52 pm Revision 1e66f628 (arvados): Provide a bit more detail about build.sh in the documentation.
refs #3363 Ward Vandewege
05:51 pm Revision 72994909 (arvados): Only the deepclean Make action should remove the skydns-image and sk...
refs #3363 Ward Vandewege
05:33 pm Revision f43267ad (arvados): Update Docker install documentation:
* suggest use of build.sh to generate config.yml
* reflect now default use of Curoverse SSO server
refs #3363
Ward Vandewege
05:23 pm Revision 3862ce78 (arvados): * Default to using the auth.curoverse.com SSO server. Add instructions
in config.yml.example for using a local SSO server.
* Do not prepopulate the config.yml file generated by build.sh w...
Ward Vandewege
04:31 pm Revision 4aea5131 (arvados): Be less presumptuous about the GNU/Linux distribution we are being run
on, and do not try to install ruby >= 1.9.3 automatically.
refs #3363
Ward Vandewege
04:27 pm Task #3429 (Resolved): Review 3261-keep-docker-config
Ward Vandewege
04:27 pm Revision 88442524 (arvados): Merge branch '3261-keep-docker-config'
refs #3261 Ward Vandewege
04:17 pm Revision fad433ed (arvados): Merge branch 'master' into 3261-keep-docker-config
Ward Vandewege
04:16 pm Revision f0a746bb (arvados): 3261: simplify Makefile
Ward Vandewege
05:34 am Task #3464 (Resolved): review #3463
Ward Vandewege
05:34 am Feature #3463 (In Progress): [workbench] add e-mail address to the user list in the sharing dialog
Ward Vandewege
05:32 am Revision 9ea36527 (arvados): Add user e-mail address to the list of users an object can be shared...
refs #3463 Ward Vandewege

08/02/2014

03:52 pm Feature #3463 (Resolved): [workbench] add e-mail address to the user list in the sharing dialog
Add the e-mail address behind the name
Ward Vandewege
02:36 pm Revision 80ada067 (arvados): Do not blow up on the 'Manage account' page if the db contains an ssh
key record that contains an invalid ssh key.
no issue #
Ward Vandewege
01:20 am Revision 8f4a899e (arvados-dev): mirroring to arbitrary external servers using arbitrary commands
(This was started off by someone on irc wanting to backup his repos to s3
using jgit.)
Sitaram Chamarty

08/01/2014

09:21 pm Story #2769: [Keep] Keep supports DELETE requests
New changes at commit:5219256
Misha Zatsman wrote:
> Some more comments from the tests:
>
> [...]
>
> Can w...
Tim Pierce
07:37 pm Story #2769: [Keep] Keep supports DELETE requests
volume.go:... Misha Zatsman
07:31 pm Story #2769: [Keep] Keep supports DELETE requests
Review of handlers.go
Oblivious question:
Your handlers are defined as taking hashes, but in the keep server doc,...
Misha Zatsman
06:44 pm Story #2769: [Keep] Keep supports DELETE requests
Some more comments from the tests:... Misha Zatsman
05:22 pm Story #2769: [Keep] Keep supports DELETE requests
> > uri: "http://localhost:25107/" ..
> > Where does this host address come from? Can we look up the port number ...
Misha Zatsman
05:06 pm Story #2769: [Keep] Keep supports DELETE requests
Revised code at commit:fe5556e.
Misha Zatsman wrote:
> So far I've only looked through the tests, but that looks ...
Tim Pierce
03:35 pm Story #2769: [Keep] Keep supports DELETE requests
So far I've only looked through the tests, but that looks great.
Here are some comments:
// Cases to test:
T...
Misha Zatsman
09:19 pm Revision 52192560 (arvados): 2769: more code review comments
* Abandon HTTP 405, return HTTP 200 whenever any blocks were found at
all
* Return a JSON message only with HTTP 2...
Tim Pierce
05:05 pm Revision c81c0efd (arvados): Fixed typo introduced by merge. refs #3443
Peter Amstutz
05:03 pm Revision fe5556e0 (arvados): 2769: code review comments
* DeleteHandler returns http.StatusNotFound when no blocks could be found at all,
and http.StatusMethodNotAllowed w...
Tim Pierce
05:02 pm Revision a4f3031b (arvados): Added $(task.outdir) and $(job.src)
Peter Amstutz
04:39 pm Bug #3452: [Workbench] "Choose a project" button should always show up on Collection pages.
On further inspection, we've determined that the approach taken by the 3452-put-collection-in-project is totally brok... Peter Amstutz
03:23 pm Bug #3452: [Workbench] "Choose a project" button should always show up on Collection pages.
Observations from testing:
- The "Add to project ..." button when used from within the collections page seems to ...
Radhika Chippada
02:19 pm Bug #3452 (In Progress): [Workbench] "Choose a project" button should always show up on Collectio...
Peter Amstutz
10:19 am Bug #3452 (Closed): [Workbench] "Choose a project" button should always show up on Collection pages.
The "Choose a project" notification box that enables the user to put a collection into a project currently only shows... Peter Amstutz
04:37 pm Task #3458 (New): Review 3452-put-collection-in-project
Peter Amstutz
02:38 pm Task #3458 (In Progress): Review 3452-put-collection-in-project
Radhika Chippada
02:15 pm Task #3458 (Closed): Review 3452-put-collection-in-project
Peter Amstutz
04:36 pm Revision ee56bdc1 (arvados): Fix for test_mount.FuseGroupsTest to reflect test fixture change. r...
Peter Amstutz
04:13 pm Story #3462: [Workbench] We need a name for the drop-down menu with email address.
The gear menu is called "settings" menu and it shows this name when I click on the gear menu.
I think it would be...
Radhika Chippada
04:09 pm Story #3462 (Closed): [Workbench] We need a name for the drop-down menu with email address.
Radhika Chippada
04:11 pm Revision fada9236 (arvados): Merge branch 'origin/3443-read-collections-from-name-links' refs #3443
Conflicts:
services/api/test/fixtures/links.yml
services/api/test/functional/arvados/v1/groups_controller_test.rb
Peter Amstutz
04:02 pm Revision d579e706 (arvados): Merge branch 'origin-3442-no-reuse-job-when-output-unreadable' refs ...
Peter Amstutz
04:00 pm Revision b01bc9f6 (arvados): Fixed record symbolic name, comment based on feedback.
Peter Amstutz
03:13 pm Task #3449 (Resolved): Review 3442-no-reuse-job-when-output-unreadable
Tim Pierce
02:29 pm Task #3449 (In Progress): Review 3442-no-reuse-job-when-output-unreadable
Tim Pierce
03:13 pm Bug #3442: Can re-use job where the job is readable but the output collection isn't.
Review at commit:ee91e2e:
Minor comments only:
* services/api/test/fixtures/links.yml
** foo_repo_readable_by_...
Tim Pierce
09:07 am Bug #3442 (In Progress): Can re-use job where the job is readable but the output collection isn't.
Peter Amstutz
03:08 pm Task #3461: Review 3257
Branch 3257-visible-user-agreements Phil Hodgson
02:56 pm Task #3461 (New): Review 3257
Phil Hodgson
02:43 pm Revision 0d103a5a (arvados): Typo fixes
Peter Amstutz
02:41 pm Task #3460 (Resolved): Add a link and make it possible to see signed user agreements
Phil Hodgson
02:35 pm Task #3459 (Resolved): Add documentation on how to specify a UserAgreement
Phil Hodgson
02:28 pm Task #3450 (Resolved): Review 3443-read-collections-from-name-links
Tim Pierce
02:16 pm Task #3450 (In Progress): Review 3443-read-collections-from-name-links
Tim Pierce
02:28 pm Bug #3443: [API] Read permissions for collections should be obtainable via name links
LGTM at commit:ad02c4a Tim Pierce
02:25 pm Story #3296 (In Progress): [Workbench] Configuration option requires new users to complete a surv...
Radhika Chippada
02:21 pm Task #3422 (In Progress): Review 2769-keep-delete-request
Peter Amstutz
02:18 pm Revision d6d7788c (arvados): Merge branch 'master' into 3232-user-guide-updates
Peter Amstutz
02:18 pm Revision 62fd09a5 (arvados): Changed button label to "Add to project..." to match button introduc...
Peter Amstutz
02:17 pm Story #3232: [Documentation] Rearrange doc site so "run a sample pipeline in Workbench" comes bef...
Reviewed one more time.
- Writing a pipeline template page
1. I copied and pasted the "Tutorial align using bw...
Radhika Chippada
11:59 am Story #3232: [Documentation] Rearrange doc site so "run a sample pipeline in Workbench" comes bef...
Radhika Chippada wrote:
> Review feedback:
>
> >> Welcome to Arvados (user/index.html) page
>
> - In “If you a...
Peter Amstutz
02:14 pm Revision 52cc8e1f (arvados): 3452: Add "Add to project..." button to collections page.
Peter Amstutz
01:20 pm Bug #3372: [Sample pipelines] Add title and description fields to user-provided input parameters ...
Peter asked me to assign this to him. He said he had been updating the template and will be working on it further. Radhika Chippada
12:01 pm Task #3325 (Resolved): Split documentation into separate Workbench and CLI sections
Peter Amstutz
12:00 pm Revision 93fd025b (arvados): Updates in response to Radhika's comments.
Peter Amstutz
11:19 am Bug #3457 (Resolved): [SDKs] 'No handlers could be found for logger "arv-get"'
On lightning-dev2, I started an 'arv keep get' command and then stopped it (Ctrl-C), then immediately resumed and got... Abram Connelly
11:17 am Feature #3455 (Resolved): [Workbench] Install cgit or Gitweb or similar git frontend for browsing...
Peter Amstutz
11:10 am Feature #3454 (Resolved): [API] Assign a system-default default docker image (instead of using th...
Peter Amstutz
10:59 am Bug #3257 (In Progress): [Workbench] Hard to find user agreement after it has been signed
Radhika Chippada
09:55 am Bug #3257 (Feedback): [Workbench] Hard to find user agreement after it has been signed
(I did not mean for this to be marked as resolved quite yet... Obviously it has to be reviewed first. I am not sure w... Phil Hodgson
09:49 am Bug #3257: [Workbench] Hard to find user agreement after it has been signed
Possible points where I got it wrong:
* In doc instructions, should adding the can_read permission be for the anon...
Phil Hodgson
09:35 am Bug #3257 (Resolved): [Workbench] Hard to find user agreement after it has been signed
Applied in changeset arvados|commit:d097d3a68ce71f277bb1fb3cd56f616bd30f67dc. Anonymous
10:55 am Feature #3453 (Resolved): [SDK] "arv keep docker" should support listing images in Keep and placi...
Peter Amstutz
10:50 am Task #3429: Review 3261-keep-docker-config
Oooops, but this is Ward's review now. Sorry :-) Tim Pierce
10:49 am Task #3429: Review 3261-keep-docker-config
LGTM at commit:5ce0e0fe Tim Pierce
09:28 am Revision d097d3a6 (arvados): Documentation for adding User Agreements (closes #3257)
Phil Hodgson
09:07 am Bug #3370 (Resolved): [Crunch] Job fails with "KeyError: 'CRUNCH_SRC'"
Peter Amstutz
09:06 am Task #3451 (Resolved): Verify Abram's problem is fixed
Peter Amstutz
08:54 am Revision 9aff2a70 (arvados): Adds a link in the user menu to see user agreements and modifies the...
Phil Hodgson
02:20 am Bug #3261 (In Progress): [Keep] arv-put fails if permission system is enabled
Tom Clegg

07/31/2014

10:51 pm Task #3451 (Resolved): Verify Abram's problem is fixed
Peter Amstutz
10:48 pm Task #3450 (Resolved): Review 3443-read-collections-from-name-links
Peter Amstutz
10:48 pm Task #3449 (Resolved): Review 3442-no-reuse-job-when-output-unreadable
Peter Amstutz
10:45 pm Revision ee91e2eb (arvados): Add check to JobsController#create that collection output of a job i...
by current user before attempting to re-use job. Added unit test. Peter Amstutz
10:03 pm Bug #3443 (In Progress): [API] Read permissions for collections should be obtainable via name links
Peter Amstutz
03:27 pm Bug #3443 (Resolved): [API] Read permissions for collections should be obtainable via name links
Peter Amstutz
10:02 pm Revision ad02c4a8 (arvados): Added special case to ArvadosModel#readable_by so that a name link g...
readable group or user uuid confers permission to read the collection. Added
unit test.
Peter Amstutz
09:55 pm Bug #3148 (Resolved): [Workbench] "Recent jobs and pipelines" doesn't actually show the most rece...
Applied in changeset arvados|commit:42d84bd014b3ab3a1906c9ba68b39835765fe705. Anonymous
09:49 pm Revision 42d84bd0 (arvados): Fix display order of recent jobs and pipelines. closes #3148
Tom Clegg
09:15 pm Feature #3448 (Resolved): [Keep] storage server records (and reports in index) the timestamp of t...
This statistic is needed to ensure a grace period (equal to permission signature TTL) after writing a block, during w... Tom Clegg
08:59 pm Revision 09e3c710 (arvados): Merge branch '3235-top-nav-site-search' refs #3235
Tom Clegg
08:59 pm Revision 3bdc5e4d (arvados): 3235: Fix test
Tom Clegg
08:53 pm Revision c69a557d (arvados): 3235: Show uuid without "unnamed -" prefix for nameless objects.
Tom Clegg
08:52 pm Revision ea94b2fe (arvados): 3235: Fix UrlGenerationError on 404 page.
Tom Clegg
08:25 pm Revision c7bf82b6 (arvados): 3235: Merge branch 'master' into 3235-top-nav-site-search
Tom Clegg
08:20 pm Bug #3261: [Keep] arv-put fails if permission system is enabled
Meanwhile, more docker patches in 3261-keep-docker-config @ commit:5ce0e0f
Tom Clegg
08:11 pm Bug #3261: [Keep] arv-put fails if permission system is enabled
Turning on permissions on 4xphq also seems fine:... Tom Clegg
07:11 pm Bug #3261: [Keep] arv-put fails if permission system is enabled
After turning on --enforce-permissions, both keep and api server seem to work as expected:
keep...
Tom Clegg
06:29 pm Bug #3261: [Keep] arv-put fails if permission system is enabled
Tim Pierce wrote:
> * docker/api/omniauth.rb.in
> ** I don't think that @SSO_HOSTNAME.ARVADOS_DOMAIN@ is going to r...
Tom Clegg
11:03 am Bug #3261: [Keep] arv-put fails if permission system is enabled
Reviewing tomclegg's 3261-keep-docker-config branch at commit:7305149:
* docker/api/omniauth.rb.in
** I don't thi...
Tim Pierce
08:19 pm Revision 5ce0e0fe (arvados): 3261: Reduce dependency bloat: process templates one dir at a time.
Tom Clegg
08:18 pm Revision 0b07e15a (arvados): 3261: Turn on --enforce-permissions in run-keep.
Tom Clegg
06:19 pm Revision fe11ead2 (arvados): 3261: Restore (and document) ability to use docker sso container.
Tom Clegg
05:27 pm Story #2985 (Resolved): [Workbench] Workbench usability and feature improvements
All subtasks are completed. Radhika Chippada
05:26 pm Task #3379 (Resolved): Review 2985-selection-button-move-copy
Tim reviewed. Radhika Chippada
05:22 pm Task #3404 (Resolved): [Tutorial] Update "Getting an API token" section to point to the new "mana...
Implemented in #3193. Reviewed by Peter as part of #3193 review. Radhika Chippada
05:19 pm Story #3235: [Workbench] Site-wide search from top nav
Regarding "In search results I see "unnamed - uuid". This does not feel classy but I see your intention", Tom asked "... Radhika Chippada
04:10 pm Story #3235: [Workbench] Site-wide search from top nav
Radhika Chippada wrote:
> - In search results I see "unnamed - uuid". This does not feel classy but I see your inten...
Tom Clegg
06:31 am Story #3235: [Workbench] Site-wide search from top nav
Reviewed the latest. Everything works as expected.
- My favorite project (folder) is now available :)
- UUID in sea...
Radhika Chippada
05:17 pm Story #3409 (Rejected): Use collection owner field
This is a duplicate of #3036 Ward Vandewege
05:11 pm Task #3357 (Resolved): Review 3193-manage-account
Review completed. Radhika Chippada
05:10 pm Feature #3129 (Resolved): [Workbench] Show API token copy-and-paste block in a pop-up accessible ...
This information is presented in a "Manager account" page as described in story #3193. Radhika Chippada
05:10 pm Story #3193 (Resolved): [Workbench] Regular user should view VMs and repositories, and manage tok...
Applied in changeset arvados|commit:da7d1fa4d078d0d7785672a195b16a9134478b0d. Radhika Chippada
04:54 pm Story #3193: [Workbench] Regular user should view VMs and repositories, and manage tokens and SSH...
Peter, addressed all the review feedback comments. As for showing the public key in the SSH Key panel, I did not want... Radhika Chippada
04:09 pm Story #3193: [Workbench] Regular user should view VMs and repositories, and manage tokens and SSH...
# "Using SSH to log into an Arvados VM" section in doc/_includes/_ssh_addkey.liquid also needs to be updated.
# Plea...
Peter Amstutz
03:43 pm Story #3193: [Workbench] Regular user should view VMs and repositories, and manage tokens and SSH...
# "Fingerprint" is one word
# The < pre > section after ~/.ssh/config: has an extra line at the end
# Now the key f...
Peter Amstutz
11:37 am Story #3193: [Workbench] Regular user should view VMs and repositories, and manage tokens and SSH...
Some more minor updates. When no repositories or virtual machines are configured for this user, add a hint to contact... Radhika Chippada
10:10 am Story #3193: [Workbench] Regular user should view VMs and repositories, and manage tokens and SSH...
Tom, addressed all your comments, except the reveal control. Most importantly, I like the key validation update we pu... Radhika Chippada
09:02 am Story #3193: [Workbench] Regular user should view VMs and repositories, and manage tokens and SSH...
+1 on using sshkey gem.
Here's how you summarize a public key on the ssh command line:...
Peter Amstutz
08:47 am Story #3193: [Workbench] Regular user should view VMs and repositories, and manage tokens and SSH...
Tom Clegg wrote:
> Offering a few nitpicks (at no extra charge!) at commit:4ec5750
> * That "read token <<foo" stuf...
Peter Amstutz
05:09 pm Task #3215 (Resolved): Arvados does not tell you your SSH login name
Added a "Manage account" page in story #3193, which shows this information along with other current user specific inf... Radhika Chippada
04:50 pm Revision da7d1fa4 (arvados): closes #3193
Merge branch '3193-manage-account' Radhika Chippada
04:48 pm Revision 30c1cff4 (arvados): 3193: one more minor doc update
Radhika Chippada
04:41 pm Revision 0a8e8fd2 (arvados): Merge branch '3193-manage-account' of git.curoverse.com:arvados into...
Radhika Chippada
04:41 pm Revision 5e319746 (arvados): 3193: add public key as tooltip to the fingerprint
Radhika Chippada
04:34 pm Revision d1d80a45 (arvados): 3193: add public key as tooltip to the fingertip
Radhika Chippada
04:27 pm Revision 8e998c69 (arvados): 3261: Fix typo.
Tom Clegg
04:20 pm Revision aaffa049 (arvados): 3261: Fix wrong variable.
Tom Clegg
04:09 pm Task #3447 (Resolved): Individual files in search preview should not be clickable: you can't do a...
Tom Clegg
04:09 pm Story #3446 (Closed): [Workbench] Sort by name before uuid in search results.
Tom Clegg
04:06 pm Feature #3445 (New): [Workbench] Improve chooser preview for collections, and add previews for ob...
Tom Clegg
04:06 pm Revision e7832d6a (arvados): 3193: some more doc updates
Radhika Chippada
03:58 pm Revision 5a5f0c45 (arvados): 3193: one more doc section and some minor ui updates.
Radhika Chippada
03:55 pm Bug #3444 (Resolved): [API] Get rid of obsolete "folder" usage in API and Workbench (after 249979...
Tom Clegg
03:33 pm Revision f22a032d (arvados): 3261: Fix wrong test: wanted file size == 0, not file size != 0.
Tom Clegg
03:33 pm Revision 01d0323b (arvados): 3193: update user tutorials with the manage account page details.
Radhika Chippada
03:31 pm Revision 708b630b (arvados): Use :body_object instead of :body
Peter Amstutz
03:29 pm Revision 57d00401 (arvados): Merge remote-tracking branch 'origin/3261-keep-docker-config' into 3...
Tom Clegg
03:26 pm Revision 96e1e7d8 (arvados): 3261: Fix permissions on run-keep script
Tom Clegg
03:26 pm Revision f516aad9 (arvados): 3261: Improve status reporting
Tom Clegg
03:02 pm Revision 5f6af45e (arvados): 3261: fixes for Docker build process
* New tool list_generated_files avoids difficult quoting/escaping
problems in Makefile
* keep/Dockerfile fixes per...
Tim Pierce
02:52 pm Bug #3441: [SDKs] arv-put (if not in debug mode) should not print an error message when it gets "...
So, one of the Keep server disks is actually full. However, I suspect it is actually the case that it is successfull... Peter Amstutz
02:44 pm Bug #3441 (Resolved): [SDKs] arv-put (if not in debug mode) should not print an error message whe...
From lightning-dev, uploading a roughly 1Gb file caused the following issue:... Abram Connelly
02:47 pm Bug #3442 (Resolved): Can re-use job where the job is readable but the output collection isn't.
Peter Amstutz
02:20 pm Bug #3439 (Resolved): "All projects" is empty in chooser dialogs
Peter Amstutz
02:20 pm Bug #3438 (Resolved): [Workbench] When selecting inputs for a pipeline, title bar of collection c...
Peter Amstutz
02:12 pm Bug #3437 (New): "Choose folder" dialog when running a pipeline displays folders you can't write to
This is confusing. It is smart enough to prevent you selecting them, but if I can't write to a folder, it shouldn't ... Peter Amstutz
02:08 pm Bug #3436 (Resolved): [Workbench] "Share with users" and "Share with groups" popups should not sh...
Radhika Chippada
01:45 pm Story #3016 (Resolved): [Workbench] Pipeline template can specify a search string to restrict cho...
Radhika Chippada
01:45 pm Task #3393 (Closed): Update build a pipeline template documentation
Tom would like us to keep the firstscript tutorial simple. Hence, not adding the search_for details to this tutorial. Radhika Chippada
12:13 pm Task #3393 (In Progress): Update build a pipeline template documentation
Radhika Chippada
01:34 pm Bug #3435 (New): Cannot see the sharing tab even with "manage" permission on a project
Peter Amstutz
01:32 pm Bug #3434 (New): No workbench user interface for sharing collections
Peter Amstutz
01:25 pm Revision 1467e4b8 (arvados): 3016: Rollback firstscript tutorial update for search_for details. T...
Radhika Chippada
12:56 pm Bug #3432: Uploading files into docker image using keep
also my current version was: arvados-python-client==0.1.1406213925.7223231 I got this error,
I did a pip install -...
Bryan Cosca
12:04 pm Bug #3432: Uploading files into docker image using keep
This was within docker. I was able to get the file outside of docker Bryan Cosca
12:03 pm Bug #3432 (Closed): Uploading files into docker image using keep
... Bryan Cosca
12:27 pm Revision a2eb617f (arvados): 3016: add detais about search_for in the firstscript tutorial
Radhika Chippada
11:56 am Story #2769: [Keep] Keep supports DELETE requests
Minor fixes added at commit:fb460bd
Tom Clegg wrote:
> Without claiming to have properly reviewed this, I noticed...
Tim Pierce
11:04 am Story #2769: [Keep] Keep supports DELETE requests
Without claiming to have properly reviewed this, I noticed a couple of minor things:
* Do we log successful DELETE r...
Tom Clegg
11:45 am Task #3431: [Workbench] We need a link / page to contact support in our topnav.
We probably want to add a "contact support" link either in the email notification drop-down or under Help drop down. ... Radhika Chippada
11:43 am Task #3431 (Resolved): [Workbench] We need a link / page to contact support in our topnav.
Radhika Chippada
11:45 am Revision fb460bdf (arvados): 2769: code review comments
* Updated TODO in handler_test.go.
* Log DELETE requests in DeleteHandler.
Refs #2769
Tim Pierce
11:34 am Revision 33d7f4bc (arvados): 3261: Fix wrong test: wanted file size == 0, not string length == 0.
Tom Clegg
11:34 am Revision 74d53a1a (arvados): 3261: Strip .in from list of generated files.
Tom Clegg
11:33 am Revision f435a88f (arvados): 3261: Propagate configured RAILS_ENV to Workbench build tasks.
Without this, the rake assets:precompile task defaults to development
mode and does nothing.
Tom Clegg
11:17 am Revision 5b305bba (arvados): 3193: minor ui update
Radhika Chippada
10:52 am Revision f9155768 (arvados): 3193: add contact admin blurb when the user has no virtual machines ...
Radhika Chippada
10:48 am Bug #3430 (Resolved): [API] Job find_or_create not advertised in the discovery document
Peter Amstutz
10:47 am Task #3429 (In Progress): Review 3261-keep-docker-config
Tim Pierce
10:46 am Task #3429 (Resolved): Review 3261-keep-docker-config
at commit:5ce0e0fe Tim Pierce
10:46 am Revision b6a2243a (arvados): 3261: Propagate configured RAILS_ENV to Workbench build tasks.
Without this, the rake assets:precompile task defaults to development
mode and does nothing.
Tom Clegg
10:39 am Bug #3427: [SDK] arv-put does not resume upload
Possibly your Python package is out of date. The latest package is arvados-python-client-0.1.1406756091.698f00b Peter Amstutz
10:35 am Bug #3428: [API] Job reuse filters shouldn't require script and repository to be listed redundantly
Fragment of a job submission:... Peter Amstutz
10:32 am Bug #3428 (Rejected): [API] Job reuse filters shouldn't require script and repository to be liste...
Peter Amstutz
10:30 am Revision 73051490 (arvados): 3261: Add Keep blob_signing_key configuration.
Tom Clegg
10:11 am Revision 0264c559 (arvados): 3261: Fix condition for showing SSH usage message.
Tom Clegg
10:10 am Revision 2343d25e (arvados): 3261: Fix alternate SSO endpoint configuration.
Tom Clegg
10:02 am Revision 76b8c966 (arvados): 3193: use HISTIGNORE for current token display
Radhika Chippada
09:46 am Revision 079d6e0e (arvados): Merge branch 'master' into 3193-manage-account
Radhika Chippada
09:45 am Revision b2b6b598 (arvados): 3193: use sshkey gem to validate the ssh key passed in.
Radhika Chippada
09:17 am Bug #3370 (In Progress): [Crunch] Job fails with "KeyError: 'CRUNCH_SRC'"
Tom Clegg
05:21 am Revision 20e4662b (arvados): 3193: add plus icon to add ssh key button
Radhika Chippada
 

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