[ARVADOS] updated: c5f31bd6f1484dc1d09ec404e201f69294f84a5b
git at public.curoverse.com
git at public.curoverse.com
Fri Oct 24 13:43:44 EDT 2014
Summary of changes:
apps/workbench/Gemfile | 2 +-
apps/workbench/Gemfile.lock | 4 +-
apps/workbench/app/assets/javascripts/dates.js | 2 +-
.../app/assets/javascripts/infinite_scroll.js | 100 ++--
.../app/assets/stylesheets/application.css.scss | 4 +-
.../app/controllers/actions_controller.rb | 2 +-
.../app/controllers/collections_controller.rb | 90 ++--
.../controllers/pipeline_instances_controller.rb | 7 +
.../app/controllers/projects_controller.rb | 2 +-
apps/workbench/app/helpers/application_helper.rb | 9 +-
.../app/helpers/pipeline_instances_helper.rb | 8 +-
.../app/models/api_client_authorization.rb | 4 +-
apps/workbench/app/models/arvados_base.rb | 13 +-
apps/workbench/app/models/authorized_key.rb | 6 +-
apps/workbench/app/models/collection.rb | 8 +-
apps/workbench/app/models/job.rb | 10 +-
apps/workbench/app/models/pipeline_instance.rb | 10 +-
apps/workbench/app/models/user.rb | 5 +-
apps/workbench/app/models/virtual_machine.rb | 4 +-
.../app/views/application/_job_progress.html.erb | 88 ++--
.../views/application/_job_status_label.html.erb | 10 -
.../application/_pipeline_status_label.html.erb | 2 +-
.../views/application/_title_and_buttons.html.erb | 2 +-
.../app/views/collections/hash_matches.html.erb | 23 +
apps/workbench/app/views/collections/show.html.erb | 14 +-
.../workbench/app/views/jobs/_show_recent.html.erb | 6 -
.../pipeline_instances/_running_component.html.erb | 162 +++---
.../_show_components_running.html.erb | 16 +-
.../views/pipeline_instances/_show_recent.html.erb | 2 +-
.../app/views/projects/_show_dashboard.html.erb | 44 +-
.../app/views/projects/_show_sharing.html.erb | 10 +-
apps/workbench/app/views/users/_tables.html.erb | 4 -
.../test/functional/collections_controller_test.rb | 9 +
.../test/functional/projects_controller_test.rb | 17 +
.../workbench/test/integration/collections_test.rb | 53 ++
.../test/integration/pipeline_instances_test.rb | 208 +++++---
apps/workbench/test/integration/projects_test.rb | 149 +++++-
apps/workbench/test/integration/users_test.rb | 7 +-
apps/workbench/test/test_helper.rb | 20 +-
apps/workbench/test/unit/collection_test.rb | 31 ++
apps/workbench/test/unit/group_test.rb | 12 +
apps/workbench/test/unit/job_test.rb | 30 +-
apps/workbench/test/unit/pipeline_instance_test.rb | 30 +-
crunch_scripts/crunchutil/subst.py | 17 +-
crunch_scripts/run-command | 169 +++++--
doc/_config.yml | 4 +
doc/_includes/_example_docker.liquid | 28 ++
doc/_includes/_run_command_foreach_example.liquid | 40 ++
doc/_includes/_run_command_simple_example.liquid | 30 ++
doc/_includes/_skip_sso_server_install.liquid | 6 +
.../_includes/_tutorial_submit_job.liquid | 11 +-
doc/api/methods/nodes.html.textile.liquid | 2 +-
doc/api/schema/Group.html.textile.liquid | 1 +
doc/api/schema/User.html.textile.liquid | 1 +
doc/images/workbench-dashboard.png | Bin 44822 -> 94257 bytes
doc/install/install-api-server.html.textile.liquid | 17 +-
doc/install/install-keep.html.textile.liquid | 12 +-
doc/install/install-sso.html.textile.liquid | 15 +
.../install-workbench-app.html.textile.liquid | 9 +-
.../reference/job-pipeline-ref.html.textile.liquid | 7 +
doc/user/topics/arv-docker.html.textile.liquid | 202 ++++++++
doc/user/topics/run-command.html.textile.liquid | 212 ++++++++
.../running-external-program.html.textile.liquid | 10 +-
.../tutorial-keep-mount.html.textile.liquid | 14 +-
.../tutorial-new-pipeline.html.textile.liquid | 27 -
...tutorial-pipeline-workbench.html.textile.liquid | 11 +-
.../tutorial-submit-job.html.textile.liquid | 38 +-
sdk/cli/bin/arv | 245 ++++++---
sdk/cli/bin/arv-run-pipeline-instance | 13 +-
sdk/cli/bin/crunch-job | 521 ++++++++++++--------
sdk/python/arvados/api.py | 18 +-
sdk/python/arvados/commands/keepdocker.py | 4 +-
sdk/python/arvados/commands/put.py | 12 +-
sdk/python/arvados/commands/ws.py | 94 ++++
sdk/python/arvados/config.py | 5 +-
sdk/python/arvados/errors.py | 4 +-
sdk/python/arvados/events.py | 97 +++-
sdk/python/bin/arv-ws | 30 +-
sdk/python/tests/run_test_server.py | 8 +-
sdk/python/tests/test_api.py | 10 +-
sdk/python/tests/test_websockets.py | 38 +-
services/api/Gemfile | 2 +-
services/api/Gemfile.lock | 8 +-
.../app/controllers/arvados/v1/jobs_controller.rb | 2 +-
.../app/controllers/arvados/v1/nodes_controller.rb | 7 -
services/api/app/models/arvados_model.rb | 4 +-
services/api/app/models/job.rb | 3 +-
services/api/app/models/log.rb | 5 +
services/api/app/models/node.rb | 54 --
services/api/app/models/user.rb | 1 +
services/api/config/application.default.yml | 9 -
services/api/config/initializers/eventbus.rb | 3 +
services/api/lib/eventbus.rb | 35 +-
services/api/script/crunch-dispatch.rb | 192 +++++---
.../test/fixtures/api_client_authorizations.yml | 12 +
services/api/test/fixtures/collections.yml | 49 ++
services/api/test/fixtures/groups.yml | 61 ++-
services/api/test/fixtures/jobs.yml | 50 ++
services/api/test/fixtures/links.yml | 27 +
services/api/test/fixtures/pipeline_instances.yml | 73 +++
services/api/test/fixtures/users.yml | 28 ++
.../functional/arvados/v1/jobs_controller_test.rb | 33 +-
.../functional/arvados/v1/nodes_controller_test.rb | 2 +-
.../functional/arvados/v1/users_controller_test.rb | 10 +
services/api/test/integration/websocket_test.rb | 36 ++
services/api/test/test_helper.rb | 2 +-
services/crunchstat/crunchstat.go | 545 +++++++++++++--------
services/crunchstat/crunchstat_test.go | 50 ++
services/fuse/arvados_fuse/__init__.py | 1 +
services/keepproxy/keepproxy.go | 25 +-
services/keepproxy/keepproxy_test.go | 31 +-
services/keepstore/handler_test.go | 113 ++---
services/keepstore/handlers.go | 17 +-
services/keepstore/perms.go | 27 +-
services/keepstore/perms_test.go | 31 +-
services/keepstore/volume_unix.go | 2 +
services/keepstore/volume_unix_test.go | 48 +-
services/nodemanager/.gitignore | 5 +
services/nodemanager/README.rst | 39 ++
services/nodemanager/arvnodeman/__init__.py | 9 +
services/nodemanager/arvnodeman/clientactor.py | 110 +++++
.../nodemanager/arvnodeman/computenode/__init__.py | 395 +++++++++++++++
.../nodemanager/arvnodeman/computenode/dummy.py | 52 ++
services/nodemanager/arvnodeman/computenode/ec2.py | 101 ++++
services/nodemanager/arvnodeman/config.py | 108 ++++
services/nodemanager/arvnodeman/daemon.py | 307 ++++++++++++
services/nodemanager/arvnodeman/jobqueue.py | 107 ++++
services/nodemanager/arvnodeman/launcher.py | 130 +++++
services/nodemanager/arvnodeman/nodelist.py | 39 ++
services/nodemanager/arvnodeman/timedcallback.py | 42 ++
services/nodemanager/bin/arvados-node-manager | 6 +
services/nodemanager/doc/ec2.example.cfg | 121 +++++
services/nodemanager/doc/local.example.cfg | 41 ++
services/{fuse => nodemanager}/setup.py | 27 +-
services/nodemanager/tests/__init__.py | 15 +
services/nodemanager/tests/test_clientactor.py | 149 ++++++
services/nodemanager/tests/test_computenode.py | 288 +++++++++++
services/nodemanager/tests/test_computenode_ec2.py | 89 ++++
services/nodemanager/tests/test_config.py | 65 +++
services/nodemanager/tests/test_daemon.py | 238 +++++++++
services/nodemanager/tests/test_jobqueue.py | 76 +++
services/nodemanager/tests/test_nodelist.py | 57 +++
services/nodemanager/tests/test_timedcallback.py | 61 +++
services/nodemanager/tests/testutil.py | 91 ++++
144 files changed, 6167 insertions(+), 1420 deletions(-)
delete mode 100644 apps/workbench/app/views/application/_job_status_label.html.erb
create mode 100644 apps/workbench/app/views/collections/hash_matches.html.erb
create mode 100644 doc/_includes/_example_docker.liquid
create mode 100644 doc/_includes/_run_command_foreach_example.liquid
create mode 100644 doc/_includes/_run_command_simple_example.liquid
create mode 100644 doc/_includes/_skip_sso_server_install.liquid
copy sdk/java/src/test/resources/first_pipeline.json => doc/_includes/_tutorial_submit_job.liquid (61%)
create mode 100644 doc/user/reference/job-pipeline-ref.html.textile.liquid
create mode 100644 doc/user/topics/arv-docker.html.textile.liquid
create mode 100644 doc/user/topics/run-command.html.textile.liquid
delete mode 100644 doc/user/tutorials/tutorial-new-pipeline.html.textile.liquid
create mode 100644 sdk/python/arvados/commands/ws.py
create mode 100644 services/crunchstat/crunchstat_test.go
create mode 100644 services/nodemanager/.gitignore
create mode 100644 services/nodemanager/README.rst
create mode 100644 services/nodemanager/arvnodeman/__init__.py
create mode 100644 services/nodemanager/arvnodeman/clientactor.py
create mode 100644 services/nodemanager/arvnodeman/computenode/__init__.py
create mode 100644 services/nodemanager/arvnodeman/computenode/dummy.py
create mode 100644 services/nodemanager/arvnodeman/computenode/ec2.py
create mode 100644 services/nodemanager/arvnodeman/config.py
create mode 100644 services/nodemanager/arvnodeman/daemon.py
create mode 100644 services/nodemanager/arvnodeman/jobqueue.py
create mode 100644 services/nodemanager/arvnodeman/launcher.py
create mode 100644 services/nodemanager/arvnodeman/nodelist.py
create mode 100644 services/nodemanager/arvnodeman/timedcallback.py
create mode 100644 services/nodemanager/bin/arvados-node-manager
create mode 100644 services/nodemanager/doc/ec2.example.cfg
create mode 100644 services/nodemanager/doc/local.example.cfg
copy services/{fuse => nodemanager}/setup.py (63%)
create mode 100644 services/nodemanager/tests/__init__.py
create mode 100644 services/nodemanager/tests/test_clientactor.py
create mode 100644 services/nodemanager/tests/test_computenode.py
create mode 100644 services/nodemanager/tests/test_computenode_ec2.py
create mode 100644 services/nodemanager/tests/test_config.py
create mode 100644 services/nodemanager/tests/test_daemon.py
create mode 100644 services/nodemanager/tests/test_jobqueue.py
create mode 100644 services/nodemanager/tests/test_nodelist.py
create mode 100644 services/nodemanager/tests/test_timedcallback.py
create mode 100644 services/nodemanager/tests/testutil.py
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commit c5f31bd6f1484dc1d09ec404e201f69294f84a5b
Author: Phil Hodgson <bitbucket at philhodgson.net>
Date: Fri Oct 24 19:40:01 2014 +0200
3618: replace js use of == and != with the more predictable === and !==
diff --git a/apps/workbench/app/assets/javascripts/infinite_scroll.js b/apps/workbench/app/assets/javascripts/infinite_scroll.js
index 2ca4548..fd37308 100644
--- a/apps/workbench/app/assets/javascripts/infinite_scroll.js
+++ b/apps/workbench/app/assets/javascripts/infinite_scroll.js
@@ -192,7 +192,7 @@ $(document).
on('click', 'th[data-sort-order]', function() {
var direction = $(this).data('sort-order-direction');
// reverse the current direction, or do ascending if none
- if( typeof(direction) == 'undefined' || direction == 'desc' ) {
+ if( typeof(direction) === 'undefined' || direction === 'desc' ) {
direction = 'asc';
} else {
direction = 'desc';
@@ -210,7 +210,7 @@ $(document).
$('th[data-sort-order]').each(function() {
$(this).find('i').remove();
var direction = $(this).data('sort-order-direction');
- if( typeof(direction) != 'undefined' ) {
+ if( typeof(direction) !== 'undefined' ) {
$(this).append('<i class="fa fa-sort-' + direction + '"/>');
} else {
$(this).append('<i class="fa fa-sort"/>');
commit 66c13b6055a363cb08197b8c5d040ed9a511c8ca
Merge: 4e62496 587fcc9
Author: Phil Hodgson <bitbucket at philhodgson.net>
Date: Fri Oct 24 14:06:45 2014 +0200
Merge branch 'master' into 3618-column-ordering
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