[ARVADOS] updated: 64e95630b452d3dff9e2575b452ec9a1cad6f47b

git at public.curoverse.com git at public.curoverse.com
Mon Jun 16 09:42:41 EDT 2014


Summary of changes:
 .../app/assets/javascripts/application.js          |   5 +
 apps/workbench/app/assets/javascripts/editable.js  |  14 +-
 .../workbench/app/assets/javascripts/filterable.js |  42 ++
 apps/workbench/app/assets/javascripts/folders.js   |  12 -
 .../app/assets/javascripts/infinite_scroll.js      |  52 +++
 .../app/assets/javascripts/pipeline_instances.js   |  41 +-
 .../app/assets/javascripts/select_modal.js         |  33 +-
 apps/workbench/app/assets/javascripts/selection.js |  53 ++-
 .../app/assets/stylesheets/application.css.scss    |  77 ++--
 .../app/assets/stylesheets/folders.css.scss        |  13 -
 .../workbench/app/assets/stylesheets/jobs.css.scss |  13 +-
 .../app/assets/stylesheets/projects.css.scss       |  12 +
 .../app/assets/stylesheets/select_modal.css.scss   |  12 +
 .../app/controllers/actions_controller.rb          |  57 ++-
 .../app/controllers/application_controller.rb      | 433 +++++++++++++++++++--
 .../app/controllers/collections_controller.rb      |  24 +-
 .../app/controllers/folders_controller.rb          | 118 ------
 .../workbench/app/controllers/groups_controller.rb |   9 +-
 apps/workbench/app/controllers/jobs_controller.rb  |   2 +-
 .../controllers/pipeline_instances_controller.rb   |  56 ++-
 .../controllers/pipeline_templates_controller.rb   |   3 +-
 .../app/controllers/projects_controller.rb         | 134 +++++++
 apps/workbench/app/controllers/users_controller.rb |   1 -
 apps/workbench/app/helpers/application_helper.rb   | 190 +++++++--
 apps/workbench/app/helpers/folders_helper.rb       |   2 -
 .../app/helpers/pipeline_instances_helper.rb       |   5 +
 apps/workbench/app/helpers/projects_helper.rb      |   2 +
 apps/workbench/app/models/arvados_base.rb          |  40 +-
 apps/workbench/app/models/collection.rb            |   9 +-
 apps/workbench/app/models/group.rb                 |   4 +-
 apps/workbench/app/models/human.rb                 |   2 +-
 apps/workbench/app/models/job.rb                   |  21 +-
 apps/workbench/app/models/link.rb                  |   4 +
 apps/workbench/app/models/pipeline_instance.rb     |  10 +-
 apps/workbench/app/models/pipeline_template.rb     |   2 +-
 apps/workbench/app/models/specimen.rb              |   2 +-
 apps/workbench/app/models/trait.rb                 |   2 +-
 .../views/application/_arvados_attr_value.html.erb |   2 +-
 .../app/views/application/_choose.html.erb         |  31 ++
 .../views/{folders => application}/_choose.js.erb  |   2 +-
 .../app/views/application/_content.html.erb        |  25 +-
 .../app/views/application/_content_layout.html.erb |   5 +-
 .../application/_delete_object_button.html.erb     |   2 +-
 .../views/application/_selection_checkbox.html.erb |   2 +-
 .../app/views/application/_show_advanced.html.erb  |  23 ++
 .../_show_advanced_api_response.html.erb           |   3 +
 .../_show_advanced_cli_example.html.erb            |   8 +
 .../_show_advanced_curl_example.html.erb           |   9 +
 .../application/_show_advanced_metadata.html.erb   |  56 +++
 .../_show_advanced_python_example.html.erb         |   5 +
 .../app/views/application/_show_json.html.erb      |   3 -
 .../app/views/application/_show_metadata.html.erb  |  58 ---
 .../views/application/_show_object_button.html.erb |  16 +-
 .../_show_object_description_cell.html.erb         |   2 +
 .../app/views/application/_show_recent.html.erb    |   4 +-
 .../app/views/application/_svg_div.html.erb        |   4 +-
 .../workbench/app/views/application/index.html.erb |  16 +-
 apps/workbench/app/views/application/show.html.erb |   3 +-
 .../workbench/app/views/collections/_choose.js.erb |   1 +
 .../app/views/collections/_choose_rows.html.erb    |  17 +
 .../app/views/collections/_index_tbody.html.erb    |   4 +-
 .../app/views/collections/_show_files.html.erb     |  12 +-
 .../_show_object_description_cell.html.erb         |  14 +
 .../app/views/collections/_show_recent.html.erb    |   4 +-
 apps/workbench/app/views/collections/show.html.erb |  45 ++-
 .../app/views/folders/_show_folders.html.erb       |  29 --
 apps/workbench/app/views/folders/show.html.erb     | 214 ----------
 .../app/views/jobs/_show_details.html.erb          |   1 +
 .../jobs/_show_object_description_cell.html.erb    |  15 +
 .../app/views/layouts/application.html.erb         | 250 ++++++------
 .../pipeline_instances/_component_labels.html.erb  |   5 +
 .../pipeline_instances/_show_compare.html.erb      |   5 +-
 .../pipeline_instances/_show_components.html.erb   | 191 ++++-----
 .../views/pipeline_instances/_show_inputs.html.erb |  17 +-
 .../_show_object_description_cell.html.erb         |   4 +
 .../views/pipeline_instances/_show_recent.html.erb |  19 -
 .../app/views/pipeline_instances/compare.html.erb  |  14 +
 .../app/views/pipeline_instances/show.html.erb     |  56 ++-
 .../app/views/pipeline_templates/_choose.js.erb    |   1 +
 .../views/pipeline_templates/_choose_rows.html.erb |  11 +
 .../views/{folders => projects}/_choose.html.erb   |  22 +-
 apps/workbench/app/views/projects/_choose.js.erb   |   1 +
 .../projects/_index_jobs_and_pipelines.html.erb    |  26 ++
 .../app/views/projects/_index_projects.html.erb    |  31 ++
 .../app/views/projects/_show_contents.html.erb     | 122 ++++++
 .../views/projects/_show_contents_rows.html.erb    |  30 ++
 .../app/views/projects/_show_featured.html.erb     |  18 +
 .../app/views/projects/_show_permissions.html.erb  |  44 +++
 apps/workbench/app/views/projects/index.html.erb   |  79 ++++
 .../remove_items.js.erb}                           |   0
 apps/workbench/app/views/users/_home.html.erb      |   2 +-
 apps/workbench/app/views/users/_tables.html.erb    |  51 ++-
 apps/workbench/app/views/users/inactive.html.erb   |  22 ++
 apps/workbench/app/views/users/welcome.html.erb    |  45 ++-
 apps/workbench/config/routes.rb                    |  11 +-
 .../test/functional/application_controller_test.rb | 299 ++++++++++++++
 .../test/functional/collections_controller_test.rb |  20 +-
 .../test/functional/folders_controller_test.rb     |   7 -
 .../test/functional/projects_controller_test.rb    |  12 +
 .../test/functional/users_controller_test.rb       |   3 +-
 .../workbench/test/integration/collections_test.rb |   7 +-
 apps/workbench/test/integration/folders_test.rb    |  83 ----
 apps/workbench/test/integration/logins_test.rb     |   5 +-
 .../test/integration/pipeline_instances_test.rb    | 115 +++++-
 apps/workbench/test/integration/projects_test.rb   |  87 +++++
 apps/workbench/test/integration/smoke_test.rb      |   4 +-
 apps/workbench/test/integration/users_test.rb      |  47 ++-
 .../test/integration/virtual_machines_test.rb      |   5 +-
 .../test/unit/arvados_resource_list_test.rb        |  12 +-
 apps/workbench/test/unit/group_test.rb             |  12 +-
 .../test/unit/helpers/folders_helper_test.rb       |   4 -
 ...oups_helper_test.rb => projects_helper_test.rb} |   0
 sdk/cli/bin/arv                                    |   5 +-
 sdk/cli/bin/crunch-job                             |  19 +-
 sdk/python/arvados/commands/_util.py               |  32 ++
 sdk/python/arvados/commands/keepdocker.py          | 219 +++++++++++
 sdk/python/arvados/commands/put.py                 | 255 ++++++------
 sdk/python/arvados/keep.py                         |  13 +-
 sdk/python/arvados/util.py                         |  24 ++
 sdk/python/bin/arv-keepdocker                      |   4 +
 sdk/python/setup.py                                |   3 +-
 sdk/python/tests/test_arv_put.py                   |   5 +-
 .../v1/api_client_authorizations_controller.rb     |   6 +
 .../arvados/v1/collections_controller.rb           |  34 +-
 services/api/app/models/blob.rb                    |   8 +
 services/api/config/application.default.yml        |  11 +
 ...0607150616_rename_folder_to_project.rb_deferred |   9 +
 services/api/test/fixtures/groups.yml              |  14 +-
 services/api/test/fixtures/links.yml               |  20 +-
 services/api/test/fixtures/pipeline_instances.yml  |  16 +
 services/api/test/fixtures/specimens.yml           |   8 +-
 .../arvados/v1/collections_controller_test.rb      | 128 ++++--
 .../api/test/functional/arvados/v1/filters_test.rb |   4 +-
 .../arvados/v1/groups_controller_test.rb           |  42 +-
 .../functional/arvados/v1/links_controller_test.rb |   6 +-
 .../functional/arvados/v1/users_controller_test.rb |   2 +-
 .../api/test/integration/collections_api_test.rb   |   8 +-
 services/api/test/unit/group_test.rb               |   2 +-
 services/api/test/unit/link_test.rb                |  10 +-
 services/api/test/unit/owner_test.rb               |   2 +-
 .../src/arvados.org/crunchstat/crunchstat.go       |  78 ++--
 services/fuse/tests/test_mount.py                  |   8 +-
 142 files changed, 3505 insertions(+), 1435 deletions(-)
 create mode 100644 apps/workbench/app/assets/javascripts/filterable.js
 delete mode 100644 apps/workbench/app/assets/javascripts/folders.js
 create mode 100644 apps/workbench/app/assets/javascripts/infinite_scroll.js
 delete mode 100644 apps/workbench/app/assets/stylesheets/folders.css.scss
 create mode 100644 apps/workbench/app/assets/stylesheets/projects.css.scss
 delete mode 100644 apps/workbench/app/controllers/folders_controller.rb
 create mode 100644 apps/workbench/app/controllers/projects_controller.rb
 delete mode 100644 apps/workbench/app/helpers/folders_helper.rb
 create mode 100644 apps/workbench/app/helpers/projects_helper.rb
 create mode 100644 apps/workbench/app/views/application/_choose.html.erb
 rename apps/workbench/app/views/{folders => application}/_choose.js.erb (88%)
 create mode 100644 apps/workbench/app/views/application/_show_advanced.html.erb
 create mode 100644 apps/workbench/app/views/application/_show_advanced_api_response.html.erb
 create mode 100644 apps/workbench/app/views/application/_show_advanced_cli_example.html.erb
 create mode 100644 apps/workbench/app/views/application/_show_advanced_curl_example.html.erb
 create mode 100644 apps/workbench/app/views/application/_show_advanced_metadata.html.erb
 create mode 100644 apps/workbench/app/views/application/_show_advanced_python_example.html.erb
 delete mode 100644 apps/workbench/app/views/application/_show_json.html.erb
 delete mode 100644 apps/workbench/app/views/application/_show_metadata.html.erb
 create mode 100644 apps/workbench/app/views/application/_show_object_description_cell.html.erb
 create mode 120000 apps/workbench/app/views/collections/_choose.js.erb
 create mode 100644 apps/workbench/app/views/collections/_choose_rows.html.erb
 create mode 100644 apps/workbench/app/views/collections/_show_object_description_cell.html.erb
 delete mode 100644 apps/workbench/app/views/folders/_show_folders.html.erb
 delete mode 100644 apps/workbench/app/views/folders/show.html.erb
 create mode 100644 apps/workbench/app/views/jobs/_show_details.html.erb
 create mode 100644 apps/workbench/app/views/jobs/_show_object_description_cell.html.erb
 create mode 100644 apps/workbench/app/views/pipeline_instances/_component_labels.html.erb
 create mode 100644 apps/workbench/app/views/pipeline_instances/_show_object_description_cell.html.erb
 mode change 120000 => 100644 apps/workbench/app/views/pipeline_instances/show.html.erb
 create mode 120000 apps/workbench/app/views/pipeline_templates/_choose.js.erb
 create mode 100644 apps/workbench/app/views/pipeline_templates/_choose_rows.html.erb
 rename apps/workbench/app/views/{folders => projects}/_choose.html.erb (52%)
 create mode 120000 apps/workbench/app/views/projects/_choose.js.erb
 create mode 100644 apps/workbench/app/views/projects/_index_jobs_and_pipelines.html.erb
 create mode 100644 apps/workbench/app/views/projects/_index_projects.html.erb
 create mode 100644 apps/workbench/app/views/projects/_show_contents.html.erb
 create mode 100644 apps/workbench/app/views/projects/_show_contents_rows.html.erb
 create mode 100644 apps/workbench/app/views/projects/_show_featured.html.erb
 create mode 100644 apps/workbench/app/views/projects/_show_permissions.html.erb
 create mode 100644 apps/workbench/app/views/projects/index.html.erb
 rename apps/workbench/app/views/{folders/remove_item.js.erb => projects/remove_items.js.erb} (100%)
 create mode 100644 apps/workbench/app/views/users/inactive.html.erb
 create mode 100644 apps/workbench/test/functional/application_controller_test.rb
 delete mode 100644 apps/workbench/test/functional/folders_controller_test.rb
 create mode 100644 apps/workbench/test/functional/projects_controller_test.rb
 delete mode 100644 apps/workbench/test/integration/folders_test.rb
 create mode 100644 apps/workbench/test/integration/projects_test.rb
 delete mode 100644 apps/workbench/test/unit/helpers/folders_helper_test.rb
 copy apps/workbench/test/unit/helpers/{groups_helper_test.rb => projects_helper_test.rb} (100%)
 create mode 100644 sdk/python/arvados/commands/_util.py
 create mode 100644 sdk/python/arvados/commands/keepdocker.py
 create mode 100755 sdk/python/bin/arv-keepdocker
 create mode 100644 services/api/db/migrate/20140607150616_rename_folder_to_project.rb_deferred

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