[ARVADOS] updated: 34350a8b802a8c48b534673a712614d36a5b97ac

git at public.curoverse.com git at public.curoverse.com
Tue Apr 29 00:38:56 EDT 2014


Summary of changes:
 .gitignore                                         |    9 +-
 apps/workbench/.gitignore                          |   18 +--
 .../api_client_authorizations_controller.rb        |    2 +-
 apps/workbench/app/controllers/users_controller.rb |   29 ++++-
 apps/workbench/app/helpers/application_helper.rb   |   18 +-
 apps/workbench/app/models/arvados_api_client.rb    |   14 ++-
 apps/workbench/app/models/arvados_resource_list.rb |   30 ++++-
 apps/workbench/app/models/group.rb                 |   10 +-
 apps/workbench/app/models/user.rb                  |   10 +-
 .../app/views/layouts/application.html.erb         |    1 -
 .../app/views/users/_show_activity.html.erb        |    2 +-
 apps/workbench/app/views/users/activity.html.erb   |   16 +-
 apps/workbench/app/views/users/storage.html.erb    |   66 ++++++++
 apps/workbench/config/routes.rb                    |    1 +
 .../pipeline_instances_controller_test.rb          |   18 ++-
 apps/workbench/test/unit/group_test.rb             |   29 +++-
 apps/workbench/test/unit/user_test.rb              |    2 +-
 doc/_config.yml                                    |    2 -
 doc/_includes/_tutorial_hash_script_py.liquid      |    8 +-
 doc/api/methods.html.textile.liquid                |   17 +--
 .../api_client_authorizations.html.textile.liquid  |   37 +----
 doc/api/methods/api_clients.html.textile.liquid    |   38 +-----
 .../methods/authorized_keys.html.textile.liquid    |   37 +----
 doc/api/methods/collections.html.textile.liquid    |   38 +-----
 doc/api/methods/groups.html.textile.liquid         |   28 +---
 doc/api/methods/humans.html.textile.liquid         |   37 +----
 doc/api/methods/job_tasks.html.textile.liquid      |   37 +----
 doc/api/methods/jobs.html.textile.liquid           |  145 ++++++++----------
 doc/api/methods/keep_disks.html.textile.liquid     |   38 +-----
 doc/api/methods/links.html.textile.liquid          |   39 +-----
 doc/api/methods/logs.html.textile.liquid           |   37 +----
 doc/api/methods/nodes.html.textile.liquid          |   37 +----
 .../methods/pipeline_instances.html.textile.liquid |   37 +----
 .../methods/pipeline_templates.html.textile.liquid |   37 +----
 doc/api/methods/repositories.html.textile.liquid   |   37 +----
 doc/api/methods/specimens.html.textile.liquid      |   37 +----
 doc/api/methods/traits.html.textile.liquid         |   37 +----
 doc/api/methods/users.html.textile.liquid          |   27 +---
 .../methods/virtual_machines.html.textile.liquid   |   63 +++-----
 doc/api/resources.html.textile.liquid              |    4 +-
 doc/api/schema/ApiClient.html.textile.liquid       |   22 +---
 .../ApiClientAuthorization.html.textile.liquid     |   23 +---
 doc/api/schema/AuthorizedKey.html.textile.liquid   |   21 +---
 doc/api/schema/Collection.html.textile.liquid      |   11 +-
 doc/api/schema/Commit.html.textile.liquid          |   38 -----
 doc/api/schema/CommitAncestor.html.textile.liquid  |   39 -----
 doc/api/schema/Group.html.textile.liquid           |   17 +--
 doc/api/schema/Human.html.textile.liquid           |   23 +---
 doc/api/schema/Job.html.textile.liquid             |   56 ++-----
 doc/api/schema/JobTask.html.textile.liquid         |   10 +-
 doc/api/schema/KeepDisk.html.textile.liquid        |   21 +---
 doc/api/schema/Link.html.textile.liquid            |    8 +-
 doc/api/schema/Log.html.textile.liquid             |   13 +-
 doc/api/schema/Node.html.textile.liquid            |   23 +---
 .../schema/PipelineInstance.html.textile.liquid    |   23 +---
 .../schema/PipelineTemplate.html.textile.liquid    |   25 +---
 doc/api/schema/Repository.html.textile.liquid      |   21 +---
 doc/api/schema/Specimen.html.textile.liquid        |   23 +---
 doc/api/schema/Trait.html.textile.liquid           |   23 +---
 doc/api/schema/User.html.textile.liquid            |   23 +---
 doc/api/schema/VirtualMachine.html.textile.liquid  |   21 +---
 .../create-standard-objects.html.textile.liquid    |   10 +-
 doc/install/install-api-server.html.textile.liquid |   87 ++++++++---
 .../install-crunch-dispatch.html.textile.liquid    |    2 +-
 .../install-workbench-app.html.textile.liquid      |   42 +++++-
 .../getting_started/ssh-access.html.textile.liquid |   42 +++---
 doc/user/index.html.textile.liquid                 |   10 +-
 doc/user/reference/api-tokens.html.textile.liquid  |    2 +-
 doc/user/topics/keep.html.textile.liquid           |    4 +-
 ...nning-pipeline-command-line.html.textile.liquid |    4 +-
 .../topics/tutorial-job-debug.html.textile.liquid  |    6 +-
 doc/user/topics/tutorial-job1.html.textile.liquid  |   10 +-
 .../topics/tutorial-parallel.html.textile.liquid   |    8 +-
 .../tutorial-trait-search.html.textile.liquid      |   28 ++--
 .../tutorials/intro-crunch.html.textile.liquid     |    2 +-
 .../running-external-program.html.textile.liquid   |    6 +-
 .../tutorial-firstscript.html.textile.liquid       |   24 ++--
 .../tutorials/tutorial-keep.html.textile.liquid    |    4 +-
 .../tutorial-new-pipeline.html.textile.liquid      |    6 +-
 sdk/cli/bin/arv-run-pipeline-instance              |   38 +++--
 services/api/.gitignore                            |   20 +---
 .../api/app/controllers/api_clients_controller.rb  |    2 -
 .../api/app/controllers/application_controller.rb  |   34 +++--
 .../app/controllers/arvados/v1/jobs_controller.rb  |   31 +++--
 .../api/app/controllers/collections_controller.rb  |    2 -
 .../app/controllers/commit_ancestors_controller.rb |    2 -
 services/api/app/controllers/commits_controller.rb |    2 -
 services/api/app/controllers/nodes_controller.rb   |   30 ----
 .../controllers/pipeline_instances_controller.rb   |    2 -
 services/api/app/controllers/users_controller.rb   |    2 -
 services/api/app/models/arvados_model.rb           |    9 +-
 services/api/app/models/job.rb                     |    2 +-
 services/api/app/models/pipeline_instance.rb       |    2 +-
 services/api/config/application.rb                 |    2 +
 services/api/config/database.yml.sample            |    8 +-
 services/api/config/routes.rb                      |  161 ++++++--------------
 services/api/lib/common_api_template.rb            |    1 -
 services/api/test/fixtures/groups.yml              |    2 +-
 services/api/test/fixtures/links.yml               |   20 ++-
 services/api/test/fixtures/pipeline_instances.yml  |   19 +++-
 .../api/test/functional/admin_notifier_test.rb     |    7 -
 .../arvados/v1/collections_controller_test.rb      |    6 +-
 .../arvados/v1/groups_controller_test.rb           |   14 ++
 .../arvados/v1/job_reuse_controller_test.rb        |  132 ++++++++++++++---
 .../arvados/v1/keep_disks_controller_test.rb       |    2 +-
 .../functional/arvados/v1/links_controller_test.rb |    2 +-
 .../functional/arvados/v1/nodes_controller_test.rb |    4 +-
 .../functional/arvados/v1/users_controller_test.rb |   10 +-
 .../functional/commit_ancestors_controller_test.rb |    7 -
 .../api/test/functional/commits_controller_test.rb |    7 -
 services/api/test/functional/user_notifier_test.rb |    7 -
 .../api/test/integration/collections_api_test.rb   |   36 +++++
 services/api/test/integration/errors_test.rb       |   27 ++++
 services/api/test/unit/pipeline_instance_test.rb   |   36 +++--
 114 files changed, 1012 insertions(+), 1586 deletions(-)
 create mode 100644 apps/workbench/app/views/users/storage.html.erb
 delete mode 100644 doc/api/schema/Commit.html.textile.liquid
 delete mode 100644 doc/api/schema/CommitAncestor.html.textile.liquid
 delete mode 100644 services/api/app/controllers/api_clients_controller.rb
 delete mode 100644 services/api/app/controllers/collections_controller.rb
 delete mode 100644 services/api/app/controllers/commit_ancestors_controller.rb
 delete mode 100644 services/api/app/controllers/commits_controller.rb
 delete mode 100644 services/api/app/controllers/nodes_controller.rb
 delete mode 100644 services/api/app/controllers/pipeline_instances_controller.rb
 delete mode 100644 services/api/app/controllers/users_controller.rb
 delete mode 100644 services/api/test/functional/admin_notifier_test.rb
 delete mode 100644 services/api/test/functional/commit_ancestors_controller_test.rb
 delete mode 100644 services/api/test/functional/commits_controller_test.rb
 delete mode 100644 services/api/test/functional/user_notifier_test.rb
 create mode 100644 services/api/test/integration/errors_test.rb

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