[ARVADOS] updated: 1.3.0-1071-g4aee7d57f
Git user
git at public.curoverse.com
Mon Jun 10 23:15:57 UTC 2019
Summary of changes:
.../app/controllers/application_controller.rb | 17 +-
.../app/controllers/projects_controller.rb | 1 -
apps/workbench/app/helpers/application_helper.rb | 8 +-
.../app/helpers/arvados_api_client_helper.rb | 2 +-
apps/workbench/app/helpers/collections_helper.rb | 2 +-
.../app/helpers/pipeline_instances_helper.rb | 2 +-
apps/workbench/app/helpers/provenance_helper.rb | 8 +-
apps/workbench/app/models/arvados_base.rb | 8 +-
apps/workbench/app/models/arvados_resource_list.rb | 15 +-
apps/workbench/app/models/collection.rb | 8 -
apps/workbench/app/models/container_work_unit.rb | 1 +
.../app/views/application/_breadcrumbs.html.erb | 2 +-
.../app/views/layouts/application.html.erb | 2 +-
.../app/views/projects/_show_dashboard.html.erb | 3 -
apps/workbench/config/initializers/inflections.rb | 8 +-
apps/workbench/config/load_config.rb | 2 +-
apps/workbench/test/integration_helper.rb | 4 +-
apps/workbench/test/test_helper.rb | 2 +-
build/build-dev-docker-jobs-image.sh | 8 +-
build/package-build-dockerfiles/centos7/Dockerfile | 5 +-
build/package-build-dockerfiles/debian8/Dockerfile | 5 +-
build/package-build-dockerfiles/debian9/Dockerfile | 5 +-
.../ubuntu1604/Dockerfile | 5 +-
.../ubuntu1804/Dockerfile | 5 +-
build/package-test-dockerfiles/debian8/Dockerfile | 4 +-
build/package-test-dockerfiles/debian9/Dockerfile | 4 +-
.../package-test-dockerfiles/ubuntu1604/Dockerfile | 4 +-
.../package-test-dockerfiles/ubuntu1804/Dockerfile | 4 +-
build/run-build-packages-one-target.sh | 5 +-
build/run-build-packages-sso.sh | 4 +-
build/run-build-test-packages-one-target.sh | 6 +-
build/run-tests.sh | 5 +-
doc/_includes/_install_ruby_and_bundler.liquid | 10 +-
...liquid => _install_ruby_and_bundler_sso.liquid} | 2 +-
doc/admin/upgrading.html.textile.liquid | 49 +++-
doc/install/install-controller.html.textile.liquid | 11 +-
.../install-dispatch-cloud.html.textile.liquid | 87 ++++---
doc/install/install-sso.html.textile.liquid | 2 +-
lib/cloud/azure/azure.go | 51 ++--
lib/cloud/azure/azure_test.go | 27 ++-
lib/cloud/ec2/ec2.go | 66 ++----
lib/cloud/ec2/ec2_test.go | 12 +-
lib/cloud/interfaces.go | 35 ++-
lib/config/cmd_test.go | 19 ++
lib/config/config.default.yml | 171 ++++++++++++-
lib/config/deprecated.go | 24 +-
lib/config/generated_config.go | 171 ++++++++++++-
lib/config/load.go | 23 +-
lib/config/load_test.go | 58 +++++
lib/controller/cmd.go | 4 +-
lib/controller/federation_test.go | 62 +----
lib/controller/handler.go | 42 ++--
lib/controller/handler_test.go | 14 +-
lib/controller/server_test.go | 15 +-
lib/dispatchcloud/cmd.go | 4 +-
lib/dispatchcloud/dispatcher.go | 12 +-
lib/dispatchcloud/dispatcher_test.go | 47 ++--
lib/dispatchcloud/driver.go | 67 +++++-
lib/dispatchcloud/test/stub_driver.go | 2 +-
lib/dispatchcloud/worker/pool.go | 47 ++--
lib/dispatchcloud/worker/pool_test.go | 27 ++-
lib/dispatchcloud/worker/verify.go | 6 +-
lib/dispatchcloud/worker/worker.go | 4 +-
lib/dispatchcloud/worker/worker_test.go | 2 +-
lib/service/cmd.go | 38 +--
lib/service/cmd_test.go | 2 +-
lib/service/error.go | 2 +-
sdk/cli/bin/crunch-job | 4 +-
sdk/cli/test/test_crunch-job.rb | 2 +
sdk/cwl/arvados_cwl/__init__.py | 21 +-
...{arv-cwl-schema.yml => arv-cwl-schema-v1.0.yml} | 0
...{arv-cwl-schema.yml => arv-cwl-schema-v1.1.yml} | 56 -----
sdk/cwl/arvados_cwl/arvcontainer.py | 12 +-
sdk/cwl/arvados_cwl/arvjob.py | 7 +-
sdk/cwl/arvados_cwl/arvtool.py | 26 +-
sdk/cwl/arvados_cwl/arvworkflow.py | 13 +-
sdk/cwl/arvados_cwl/done.py | 2 +-
sdk/cwl/arvados_cwl/executor.py | 72 ++++--
sdk/cwl/arvados_cwl/runner.py | 180 ++++++++++++--
sdk/cwl/setup.py | 6 +-
sdk/cwl/test_with_arvbox.sh | 35 ++-
sdk/cwl/tests/secondary/wf.cwl | 2 +
sdk/cwl/tests/test_container.py | 264 ++++++++++++++++++++-
sdk/cwl/tests/test_job.py | 49 ++--
sdk/cwl/tests/test_submit.py | 31 ++-
sdk/cwl/tests/wf-defaults/wf6.cwl | 5 +-
sdk/cwl/tests/wf-defaults/wf7.cwl | 5 +-
sdk/cwl/tests/wf/runin-reqs-wf.cwl | 3 +
sdk/cwl/tests/wf/runin-reqs-wf2.cwl | 3 +
sdk/cwl/tests/wf/runin-reqs-wf4.cwl | 3 +
sdk/cwl/tests/wf/runin-wf.cwl | 4 +-
sdk/cwl/tests/wf/runin-with-ttl-wf.cwl | 4 +-
sdk/cwl/tests/wf/scatter2_subwf.cwl | 12 +-
sdk/dev-jobs.dockerfile | 17 +-
sdk/go/arvados/config.go | 183 +++++---------
sdk/go/arvados/duration.go | 11 +-
sdk/go/arvados/duration_test.go | 45 ++++
sdk/go/arvados/fs_collection_test.go | 3 +-
sdk/go/arvados/fs_project_test.go | 7 +-
sdk/go/arvados/fs_site_test.go | 36 ++-
sdk/go/arvadostest/fixtures.go | 1 -
sdk/go/arvadostest/stub.go | 22 ++
sdk/go/health/aggregator.go | 71 +++---
sdk/go/health/aggregator_test.go | 144 ++++++-----
sdk/go/keepclient/keepclient_test.go | 4 +-
sdk/pam/arvados_pam/__init__.py | 2 +-
sdk/python/tests/run_test_server.py | 40 ++--
services/api/Gemfile.lock | 2 +-
.../api/app/controllers/application_controller.rb | 19 +-
.../arvados/v1/collections_controller.rb | 12 +
.../arvados/v1/container_requests_controller.rb | 18 ++
.../controllers/arvados/v1/groups_controller.rb | 9 +
services/api/app/models/arvados_model.rb | 53 -----
services/api/app/models/commit.rb | 2 +-
services/api/app/models/user.rb | 2 +-
services/api/config/arvados_config.rb | 7 +
.../20190322174136_add_file_info_to_collection.rb | 52 +---
services/api/lib/tasks/symbols.rake | 109 +++++++++
.../populate-file-info-columns-in-collections.rb | 97 ++++++++
services/api/test/fixtures/links.yml | 9 +
.../arvados/v1/collections_controller_test.rb | 22 +-
.../arvados/v1/groups_controller_test.rb | 17 ++
.../api/test/integration/collections_api_test.rb | 98 ++++++++
...eep_munge_test.rb => container_request_test.rb} | 28 +--
services/api/test/unit/arvados_model_test.rb | 11 -
services/crunch-run/copier_test.go | 6 +-
services/health/main.go | 69 +-----
services/keep-web/cache_test.go | 12 +-
services/keep-web/cadaver_test.go | 4 +-
services/keep-web/handler_test.go | 6 +-
services/keep-web/server_test.go | 6 +-
services/login-sync/.gitignore | 1 -
services/login-sync/Gemfile.lock | 87 +++++++
.../lib/arvbox/docker/service/certificate/run | 3 +-
134 files changed, 2396 insertions(+), 1151 deletions(-)
copy doc/_includes/{_install_ruby_and_bundler.liquid => _install_ruby_and_bundler_sso.liquid} (93%)
copy sdk/cwl/arvados_cwl/{arv-cwl-schema.yml => arv-cwl-schema-v1.0.yml} (100%)
rename sdk/cwl/arvados_cwl/{arv-cwl-schema.yml => arv-cwl-schema-v1.1.yml} (80%)
create mode 100644 sdk/go/arvados/duration_test.go
mode change 100755 => 100644 services/api/db/migrate/20190322174136_add_file_info_to_collection.rb
create mode 100644 services/api/lib/tasks/symbols.rake
create mode 100755 services/api/script/populate-file-info-columns-in-collections.rb
copy services/api/test/integration/{noop_deep_munge_test.rb => container_request_test.rb} (62%)
create mode 100644 services/login-sync/Gemfile.lock
via 4aee7d57faff02fc6b7b6f750dc22a29e58bb963 (commit)
via 8bc8c53ca9c2c834a93f1aa656771cc6b8a4e799 (commit)
via c7d692a3f09d8116cc52591f8852c4e0d6e4ab3c (commit)
via d1a531b386641417d23f41115408d672f98c7e75 (commit)
via e7c542383a6364d422a14704a8ab11c96a976a41 (commit)
via e838828374ceed5ef6da260939251e86f72b6f27 (commit)
via b670c0c80785770774e28a80d883dc258510bdb0 (commit)
via 9ee500be1e3dfd9a64214a14aba460108bcfa345 (commit)
via a061ac1788c67e7f0107a80c63005af328306afa (commit)
via a94f8d99a72d817d998d338607b8941aa4a450ff (commit)
via 502005c3002c9ee9f07b36ac4a5aa370aa056c50 (commit)
via b15cc4afed604255dfee435aa8c1663c46895860 (commit)
via b93dc244f39ea9b8a4552804cd24d251658531e3 (commit)
via 85577ffe94f97defab4efa8cdcab9252da98f4c6 (commit)
via de3ced158ccf579efbe9bfe0e23e03eb9417daeb (commit)
via e9a3a68fd1c238cd2a6e72df73141462dfe41a85 (commit)
via 2c8706a4039f10274666b1cd879527d2e18fa338 (commit)
via 57eb9ae04ace45f70d2e0ceaeda3457062074b95 (commit)
via 69807aebd1d73a10280d28e99a6d4f5c719175f4 (commit)
via 22722aab8f5aaf33d75975738d7e4f9c46150722 (commit)
via d289f9642981adc8b332a03caf31fe2a93fd313f (commit)
via 4c63c6827062e71bd538a118603a77014c2636fe (commit)
via 1fd7b7089dd0027d36e46c2e1fbb44aee4cc1e66 (commit)
via 18ae48a2e9858fdbbe96d7fb0141397310c6044f (commit)
via a0b36ed86d499b53c442a0050d694d7a3ce35ed5 (commit)
via b3d5254ce24ca82904b13d61012b2d8d676a30d8 (commit)
via 921537f5a37f03cdcd1f00abe25914306f83e956 (commit)
via 0d5c86670e4ac37e4caceafabd9d6c65d2a89265 (commit)
via 9052027ce0c8e3f3a338b4b1541bf4119185c327 (commit)
via 2b2482b42492de157229b900a85e9da589c5ab67 (commit)
via 9bb2369da7abe777e559e43a1fb5b3e293e9def1 (commit)
via 33c298ad7c00c336cd628e04b6478d725c9acf62 (commit)
via 5ea0a240eb08a4d43d5f7670a694f0158f0bac36 (commit)
via 6c78b28f9f54664babc57a4b4372c502065ed5d1 (commit)
via fdadf2969c54edc7314ca50a629f3912998087b4 (commit)
via 903b27b2f4b8b00c11525ff6c2f4eb383709d074 (commit)
via d56b21609ddd2e2e096f5c30e991d24aa213f7f4 (commit)
via 1a18a29729f91dd23f89387f5277c91607376fd9 (commit)
via 65c515131a8243fd30c32a609b6b37a1fb4d8fc2 (commit)
via 7f68130d098483c5169add6f0454e62fa2d7befa (commit)
via 6f17bfcae56d0f6032e1cf4087ba7c2e7b092424 (commit)
via c792e4991e1d77620d61efaa2600a93d75227f06 (commit)
via 87118da0b789b47dbafff821b50ed0f921ee490c (commit)
via 6e73eff3926a2e7345333edd02531e8e6fbe15ef (commit)
via 82fff312b0249ae6757bdffc59c985303998748a (commit)
via 5155ef0eaae5a3cdef3d8c3490d138dfcbeaa736 (commit)
via 7109ea1b2a49bc7fdbdbfd2302eb2457750ce5cd (commit)
via 78c908ca43839aa38bb45ef9a9959e1005e39494 (commit)
via 97d368d1f14a17b0c4d847a22b51444b577f4bab (commit)
via 8fc29fafb91cf64ce4ededbdd85ef9507c51f216 (commit)
via 5c46278622fff6b7db0d605a0170674626aadc64 (commit)
via 9e27319d4ec960e6fac43322b885e8aa355651f9 (commit)
via f27aa12c4dd863e1c4a8c0c61cba365c99bdc5e7 (commit)
via e824e159b213262403771ca4060ac03a7d558b55 (commit)
via eb52e0cd0b7e6e7c479fec820b3c19566984c79c (commit)
via 472090e584f8ce68c97e082aba08c79f2a242848 (commit)
via ebce50053f2f560591bef4ca3552f9d43a4bdfd4 (commit)
via 6cd211af76807e01bdf0c7cd41cbd5002f32e822 (commit)
via 618643017913c78a4d584ba4a5d9ca0db333a4f3 (commit)
via cb026a96db7c614c05ada93c5b7b1d2d22394b0c (commit)
via ac2785f7f3932ffa4988b6752482f0c1c6883c02 (commit)
via c4107b1da872fe7df4c73de1a1d496bbfa1290dc (commit)
via 0a80a91b9921dc70feedccdbc8adcbb1c3b1df07 (commit)
via d88327b8cfecf2a975a24bcb113121c6b72e743b (commit)
via 60560d144b7abf7ff98eb12ca3a591211df19ce9 (commit)
via 725ff809bfef3214ca9117b768711c8136ed4cc3 (commit)
via 14db4dcdc2b0b7e5fbc81d62cf581dea5ccc07f4 (commit)
via 74b22016e6213628510414c96a7b7cd04c432378 (commit)
via e3f324c979fe45803e2bd42aa8f6d715ea23edb5 (commit)
via 65836a37f88d103c2660c002beaa9e9faaa2ac8c (commit)
via d6358ef9fc0d8474827830a7ea0a451832e1fbec (commit)
via db1cbf4f40a83c4af347be9737d7bca7ccd772ab (commit)
via 15c688d1c4b41232536d0a275dd5c0fdb8879a00 (commit)
via 8ee2632316f61a63f5af52e84e1538e26850005e (commit)
via b3d57ff3ccf9c612a11fcf53a451a0f61a362da6 (commit)
via a26a249eed0299c56e6583a4fae2b9f6dc16bf7f (commit)
via 48a3b3a3c28a6590fdf3d2b750192706cb751fae (commit)
via 1167d410254ff8babfec9f2fdaae1958b368a1b9 (commit)
via 7e1044a644e388d172a645426bc3df69ab7d69c4 (commit)
via c43d9e862d65065c05ee1ef4e6f2ba7d7ec28ed9 (commit)
via 9d16aee92f74792ced623bdf0001512a2ac8bb94 (commit)
via b1a07300e1c978fdb32e46c3683e6ec5caadb2bf (commit)
via d96646a3a239e0e581659ae3c7a1f971c023f649 (commit)
via fac8be67a78650367ba51fda6758bcc91f3f1ba0 (commit)
via bfe31b5db42a7c66b49ebcd519e90d590cafe825 (commit)
via 56555817311d4cadf261cd3aa380361690e6fe65 (commit)
via 35852356dd9bb2e29e8aebb208e063d9fe924316 (commit)
via c042cd8120be2c54f54ee2a6041adbc30e141190 (commit)
via 420b31d5f181d320e6f770cc3c63f2ae66908c88 (commit)
via 1746985ec50d72cad304640f1ea39e2a9dff07bf (commit)
via 21b517dfc95984e812b4b9c4243edfb0dbf5754a (commit)
via a3b40d4546cb18744d6052ffb47f5f81773ac261 (commit)
via c4e2ca60d9f572a7cbf194dcd4f15d26d8fa49b5 (commit)
via 675eb1e789edcb2b05e818943e9f8c333952f107 (commit)
via 9e265731cf581ffb3650fd9db1aa0347650e2128 (commit)
via 3954f59491891999e117fe1b56d073d628775e5e (commit)
via 8a3e48d792f1b9f3ba12cefee4c0cdb50d85c847 (commit)
via 09fcc3cf5ba690aa75c36dfef911c730f48f05ab (commit)
via ac0dc6c57a2b4f736b6faf62421de56a3355db04 (commit)
from 11b5f048229cc5afa785274e555d0874e9405397 (commit)
Those revisions listed above that are new to this repository have
not appeared on any other notification email; so we list those
revisions in full, below.
commit 4aee7d57faff02fc6b7b6f750dc22a29e58bb963
Merge: 11b5f0482 8bc8c53ca
Author: Lucas Di Pentima <ldipentima at veritasgenetics.com>
Date: Mon Jun 10 20:15:23 2019 -0300
Merge branch 'master' into 14930-arvput-trash-at
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima at veritasgenetics.com>
-----------------------------------------------------------------------
hooks/post-receive
--
More information about the arvados-commits
mailing list