[ARVADOS] updated: 15b33da892e2d877bc70c8e9f2e2524907cf8972
Git user
git at public.curoverse.com
Wed Mar 1 15:12:55 EST 2017
Summary of changes:
.gitignore | 5 +
COPYING | 14 +-
README.md | 3 +-
apps/workbench/Gemfile | 11 +-
apps/workbench/Gemfile.lock | 27 +-
.../app/assets/javascripts/infinite_scroll.js | 4 +-
.../app/assets/javascripts/pipeline_instances.js | 20 -
.../app/assets/javascripts/work_unit_component.js | 16 +
.../app/assets/javascripts/work_unit_log.js | 68 ++
.../app/controllers/application_controller.rb | 109 +-
.../app/controllers/collections_controller.rb | 28 +-
.../controllers/container_requests_controller.rb | 88 ++
.../app/controllers/containers_controller.rb | 8 +
apps/workbench/app/controllers/jobs_controller.rb | 12 +-
.../controllers/pipeline_instances_controller.rb | 12 +-
.../app/controllers/projects_controller.rb | 58 +-
.../controllers/work_unit_templates_controller.rb | 32 +
.../app/controllers/work_units_controller.rb | 182 +++
.../app/controllers/workflows_controller.rb | 6 +
apps/workbench/app/helpers/application_helper.rb | 172 ++-
.../app/helpers/pipeline_instances_helper.rb | 5 +-
apps/workbench/app/models/arvados_api_client.rb | 4 +
apps/workbench/app/models/arvados_base.rb | 6 +-
apps/workbench/app/models/container.rb | 6 +
apps/workbench/app/models/container_request.rb | 14 +
apps/workbench/app/models/container_work_unit.rb | 168 +++
apps/workbench/app/models/job.rb | 9 +-
apps/workbench/app/models/job_task.rb | 3 +
apps/workbench/app/models/job_task_work_unit.rb | 5 +
apps/workbench/app/models/job_work_unit.rb | 96 ++
apps/workbench/app/models/pipeline_instance.rb | 10 +-
.../app/models/pipeline_instance_work_unit.rb | 58 +
apps/workbench/app/models/proxy_work_unit.rb | 326 +++++
apps/workbench/app/models/work_unit.rb | 206 ++++
apps/workbench/app/models/workflow.rb | 5 +
.../_choose_rows.html.erb | 0
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.../views/application/_title_and_buttons.html.erb | 3 +
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apps/workbench/app/views/collections/show.html.erb | 40 +-
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.../_name_and_description.html.erb | 21 +
.../views/container_requests/_show_inputs.html.erb | 49 +
.../views/container_requests/_show_log.html.erb | 1 +
.../views/container_requests/_show_status.html.erb | 1 +
.../app/views/containers/_show_log.html.erb | 1 +
.../app/views/containers/_show_status.html.erb | 17 +
.../workbench/app/views/jobs/_show_status.html.erb | 46 +-
.../pipeline_instances/_running_component.html.erb | 2 +-
.../pipeline_instances/_show_components.html.erb | 4 +-
.../_show_components_json.html.erb | 2 +
.../_show_components_running.html.erb | 2 +-
.../pipeline_instances/_show_tab_buttons.html.erb | 5 +-
.../views/projects/_compute_node_status.html.erb | 47 +-
.../views/projects/_compute_node_summary.html.erb | 7 +-
.../app/views/projects/_show_dashboard.html.erb | 245 ++--
.../projects/_show_jobs_and_pipelines.html.erb | 5 -
.../projects/_show_pipeline_templates.html.erb | 5 +-
.../_show_pipelines_and_processes.html.erb | 5 +
.../app/views/projects/_show_processes.html.erb | 5 +
.../app/views/projects/_show_workflows.html.erb | 5 +
apps/workbench/app/views/projects/show.html.erb | 22 +-
apps/workbench/app/views/users/profile.html.erb | 6 +-
.../views/work_units/_component_detail.html.erb | 133 +++
.../app/views/work_units/_progress.html.erb | 12 +
.../views/work_units/_show_all_processes.html.erb | 51 +
.../work_units/_show_all_processes_rows.html.erb | 23 +
.../app/views/work_units/_show_child.html.erb | 58 +
.../app/views/work_units/_show_component.html.erb | 48 +
.../app/views/work_units/_show_log.html.erb | 28 +
.../app/views/work_units/_show_log_link.html.erb | 14 +
.../app/views/work_units/_show_output.html.erb | 13 +
.../app/views/work_units/_show_outputs.html.erb | 12 +
.../app/views/work_units/_show_status.html.erb | 6 +
apps/workbench/app/views/work_units/index.html.erb | 1 +
.../views/workflows/_show_chooser_preview.html.erb | 3 +
apps/workbench/config/application.default.yml | 15 +
apps/workbench/config/initializers/lograge.rb | 16 +
.../workbench}/config/initializers/time_format.rb | 0
apps/workbench/config/load_config.rb | 2 +-
apps/workbench/config/routes.rb | 13 +-
apps/workbench/lib/tasks/config_dump.rake | 6 +
.../controllers/application_controller_test.rb | 24 +
.../controllers/collections_controller_test.rb | 7 -
.../container_requests_controller_test.rb | 59 +
.../test/controllers/containers_controller_test.rb | 15 +
.../test/controllers/disabled_api_test.rb | 66 ++
.../test/controllers/jobs_controller_test.rb | 15 +
.../pipeline_instances_controller_test.rb | 8 +-
.../test/controllers/projects_controller_test.rb | 114 +-
.../test/controllers/work_units_controller_test.rb | 68 ++
.../test/controllers/workflows_controller_test.rb | 9 +
.../test/diagnostics/container_request_test.rb | 49 +
apps/workbench/test/diagnostics/pipeline_test.rb | 47 +-
apps/workbench/test/diagnostics_test_helper.rb | 50 +-
.../test/helpers/fake_websocket_helper.rb | 18 +
apps/workbench/test/helpers/share_object_helper.rb | 8 +-
.../test/integration/anonymous_access_test.rb | 68 +-
.../test/integration/application_layout_test.rb | 48 +-
.../test/integration/container_requests_test.rb | 112 ++
apps/workbench/test/integration/download_test.rb | 6 +-
apps/workbench/test/integration/jobs_test.rb | 65 +-
apps/workbench/test/integration/logins_test.rb | 2 +-
.../test/integration/pipeline_instances_test.rb | 25 +-
.../test/integration/pipeline_templates_test.rb | 2 +-
apps/workbench/test/integration/projects_test.rb | 53 +-
.../test/integration/user_profile_test.rb | 134 +--
apps/workbench/test/integration/users_test.rb | 3 +-
apps/workbench/test/integration/websockets_test.rb | 196 ++--
apps/workbench/test/integration/work_units_test.rb | 257 ++++
apps/workbench/test/integration_helper.rb | 41 +-
.../collections_perf_test.rb | 4 +-
apps/workbench/test/performance/browsing_test.rb | 2 +-
apps/workbench/test/support/fake_websocket.js | 15 +
apps/workbench/test/test_helper.rb | 10 +-
apps/workbench/test/unit/disabled_api_test.rb | 15 +
apps/workbench/test/unit/work_unit_test.rb | 101 ++
backports/deb-fuse/fpm-info.sh | 5 +
backports/deb-libfuse-dev/fpm-info.sh | 5 +
backports/python-apache-libcloud/fpm-info.sh | 9 +
backports/python-ciso8601/fpm-info.sh | 3 -
backports/python-llfuse/fpm-info.sh | 9 +-
backports/python-pycrypto/fpm-info.sh | 3 -
backports/python-pycurl/fpm-info.sh | 44 -
build/README | 34 +
build/build-dev-docker-jobs-image.sh | 63 +
build/build.list | 44 +
build/go-python-package-scripts/postinst | 64 +
build/go-python-package-scripts/prerm | 30 +
build/libcloud-pin | 2 +-
build/package-build-dockerfiles/Makefile | 18 +-
build/package-build-dockerfiles/centos6/Dockerfile | 36 -
build/package-build-dockerfiles/centos7/Dockerfile | 25 +
build/package-build-dockerfiles/debian8/Dockerfile | 6 +-
.../ubuntu1204/Dockerfile | 6 +-
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build/package-test-dockerfiles/centos6/Dockerfile | 21 -
build/package-test-dockerfiles/centos7/Dockerfile | 15 +
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build/package-test-dockerfiles/debian7/Dockerfile | 14 -
build/package-test-dockerfiles/debian8/Dockerfile | 7 +-
.../package-test-dockerfiles/ubuntu1204/Dockerfile | 9 +-
.../package-test-dockerfiles/ubuntu1404/Dockerfile | 9 +-
.../package-test-dockerfiles/ubuntu1604/Dockerfile | 20 +
.../ubuntu1604/etc-apt-preferences.d-arvados | 3 +
.../common-test-rails-server-package.sh | 29 +
build/package-testing/deb-common-test-packages.sh | 2 +-
build/package-testing/rpm-common-test-packages.sh | 47 +
.../test-package-arvados-api-server.sh | 21 +-
.../test-package-arvados-sso-server.sh | 173 +--
.../test-package-arvados-workbench.sh | 21 +-
.../test-package-python-arvados-cwl-runner.sh | 1 +
.../test-package-python-arvados-fuse.sh | 1 +
.../test-package-python-arvados-python-client.sh | 1 +
...t-package-python27-python-arvados-cwl-runner.sh | 6 +
...ackage-python27-python-arvados-python-client.sh | 2 +-
build/package-testing/test-packages-centos6.sh | 44 -
build/package-testing/test-packages-centos7.sh | 1 +
...ages-debian7.sh => test-packages-ubuntu1604.sh} | 0
build/rails-package-scripts/postinst.sh | 21 +-
build/rails-package-scripts/step2.sh | 50 +
build/run-build-docker-images.sh | 10 +-
build/run-build-docker-jobs-image.sh | 75 +-
build/run-build-packages-all-targets.sh | 2 +-
build/run-build-packages-one-target.sh | 36 +-
build/run-build-packages-sso.sh | 9 +-
build/run-build-packages.sh | 473 ++++----
build/run-build-test-packages-one-target.sh | 4 +-
build/run-library.sh | 166 ++-
build/run-tests.sh | 298 +++--
crunch_scripts/cwl-runner | 90 +-
doc/README.textile | 1 +
doc/_config.yml | 98 +-
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.../_container_scheduling_parameters.liquid | 7 +
doc/_includes/_crunch1only_begin.liquid | 2 +
doc/_includes/_crunch1only_end.liquid | 1 +
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doc/_includes/_install_postgres.liquid | 22 -
doc/_includes/_install_postgres_database.liquid | 15 +
doc/_includes/_install_redhat_postgres_auth.liquid | 11 -
doc/_includes/_install_ruby_and_bundler.liquid | 16 +-
doc/_includes/_mount_types.liquid | 118 ++
doc/_includes/_navbar_top.liquid | 2 +-
...e_python27_sc.liquid => _note_python_sc.liquid} | 4 +-
doc/_includes/_notebox_begin_warning.liquid | 2 +
doc/_includes/_pipeline_deprecation_notice.liquid | 3 +
doc/_includes/_what_is_cwl.liquid | 1 +
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doc/api/authentication.html.textile.liquid | 40 -
doc/api/crunch-scripts.html.textile.liquid | 5 +-
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.../methods/authorized_keys.html.textile.liquid | 43 +-
doc/api/methods/collections.html.textile.liquid | 55 +-
.../methods/container_requests.html.textile.liquid | 137 +++
doc/api/methods/containers.html.textile.liquid | 127 ++
doc/api/methods/groups.html.textile.liquid | 49 +-
doc/api/methods/humans.html.textile.liquid | 39 +-
doc/api/methods/job_tasks.html.textile.liquid | 55 +-
doc/api/methods/jobs.html.textile.liquid | 101 +-
doc/api/methods/keep_disks.html.textile.liquid | 52 +-
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doc/api/methods/links.html.textile.liquid | 69 +-
doc/api/methods/logs.html.textile.liquid | 49 +-
doc/api/methods/nodes.html.textile.liquid | 50 +-
.../methods/pipeline_instances.html.textile.liquid | 44 +-
.../methods/pipeline_templates.html.textile.liquid | 182 ++-
doc/api/methods/repositories.html.textile.liquid | 45 +-
doc/api/methods/specimens.html.textile.liquid | 41 +-
doc/api/methods/traits.html.textile.liquid | 40 +-
doc/api/methods/users.html.textile.liquid | 67 +-
.../methods/virtual_machines.html.textile.liquid | 52 +-
doc/api/methods/workflows.html.textile.liquid | 77 ++
doc/api/permission-model.html.textile.liquid | 143 +--
doc/api/requests.html.textile.liquid | 349 ++++++
doc/api/resources.html.textile.liquid | 46 +-
doc/api/schema/ApiClient.html.textile.liquid | 24 -
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doc/api/schema/Collection.html.textile.liquid | 39 -
doc/api/schema/Group.html.textile.liquid | 25 -
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doc/api/schema/JobTask.html.textile.liquid | 47 -
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doc/api/schema/Link.html.textile.liquid | 83 --
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doc/api/schema/Node.html.textile.liquid | 28 -
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doc/api/schema/User.html.textile.liquid | 30 -
doc/api/schema/VirtualMachine.html.textile.liquid | 21 -
doc/api/storage.html.textile.liquid | 170 +++
doc/api/tokens.html.textile.liquid | 63 +
doc/images/Arvados_Permissions.svg | 4 +
doc/images/Crunch_dispatch.svg | 4 +
doc/images/Keep_manifests.svg | 4 +
doc/images/Keep_reading_writing_block.svg | 4 +
doc/images/Keep_rendezvous_hashing.svg | 4 +
doc/images/Session_Establishment.svg | 4 +
doc/images/upload-using-workbench.png | Bin 49690 -> 23979 bytes
doc/images/workbench-dashboard.png | Bin 94257 -> 57930 bytes
doc/images/workbench-move-selected.png | Bin 47833 -> 15450 bytes
.../create-standard-objects.html.textile.liquid | 10 +
.../install-compute-node.html.textile.liquid | 32 +
.../install-dispatch.html.textile.liquid | 148 +++
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doc/install/install-api-server.html.textile.liquid | 33 +-
.../install-arv-git-httpd.html.textile.liquid | 52 +-
.../install-compute-node.html.textile.liquid | 90 +-
.../install-crunch-dispatch.html.textile.liquid | 2 +-
doc/install/install-docker.html.textile.liquid | 241 ----
.../install-keep-balance.html.textile.liquid | 166 +++
doc/install/install-keep-web.html.textile.liquid | 2 +-
doc/install/install-keepproxy.html.textile.liquid | 12 +-
doc/install/install-keepstore.html.textile.liquid | 79 +-
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doc/install/install-sso.html.textile.liquid | 49 +-
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doc/install/install-ws.html.textile.liquid | 204 ++++
doc/sdk/cli/install.html.textile.liquid | 27 +-
doc/sdk/cli/reference.html.textile.liquid | 13 +-
doc/sdk/go/example.html.textile.liquid | 76 ++
doc/sdk/go/index.html.textile.liquid | 15 +-
doc/sdk/index.html.textile.liquid | 13 +-
doc/sdk/java/example.html.textile.liquid | 78 ++
doc/sdk/java/index.html.textile.liquid | 19 +-
doc/sdk/perl/example.html.textile.liquid | 81 ++
doc/sdk/perl/index.html.textile.liquid | 59 +-
doc/sdk/python/events.html.textile.liquid | 2 +-
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doc/sdk/ruby/example.html.textile.liquid | 75 ++
doc/sdk/ruby/index.html.textile.liquid | 78 +-
doc/user/cwl/bwa-mem/bwa-mem-input-local.yml | 14 +
doc/user/cwl/bwa-mem/bwa-mem-input.yml | 14 +
doc/user/cwl/bwa-mem/bwa-mem-template.yml | 4 +
doc/user/cwl/bwa-mem/bwa-mem.cwl | 45 +
doc/user/cwl/cwl-extensions.html.textile.liquid | 56 +
doc/user/cwl/cwl-run-options.html.textile.liquid | 94 ++
doc/user/cwl/cwl-runner.html.textile.liquid | 153 +++
doc/user/cwl/cwl-style.html.textile.liquid | 170 +++
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doc/user/topics/arv-docker.html.textile.liquid | 128 +-
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docker/.gitignore | 2 -
docker/README.md | 81 --
docker/api/.gitolite.rc | 191 ---
docker/api/Dockerfile | 75 --
docker/api/apache2_foreground.sh | 7 -
docker/api/apache2_vhost.in | 50 -
docker/api/application.yml.in | 67 --
docker/api/apt.arvados.org.list | 2 -
docker/api/arvados-clients.yml.in | 6 -
docker/api/config_databases.sh.in | 15 -
docker/api/crunch-dispatch-run.sh | 24 -
docker/api/database.yml.in | 25 -
docker/api/keep_proxy.json | 6 -
docker/api/keep_server_0.json.in | 6 -
docker/api/keep_server_1.json.in | 6 -
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docker/api/munge.sh | 3 -
docker/api/omniauth.rb.in | 18 -
docker/api/passenger.sh | 7 -
docker/api/setup-gitolite.sh.in | 73 --
docker/api/setup.sh.in | 82 --
docker/api/slurm.conf.in | 60 -
docker/api/superuser_token.in | 1 -
docker/api/supervisor.conf | 43 -
docker/arv-web/Dockerfile | 15 -
docker/arv-web/apache2_foreground.sh | 8 -
docker/arv-web/apache2_vhost | 19 -
docker/arvdock | 559 ---------
docker/base/Dockerfile | 43 -
docker/base/apt.arvados.org.list | 2 -
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docker/build.sh | 41 -
docker/build_tools/Makefile | 281 -----
docker/build_tools/build.rb | 232 ----
docker/build_tools/config.rb | 74 --
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docker/jobs/Dockerfile | 12 +-
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docker/passenger/Dockerfile | 19 -
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docker/workbench/production.rb.in | 91 --
docker/workbench/secret_token.rb.in | 7 -
docker/workbench/workbench_rails_env.in | 1 -
lib/crunchstat/crunchstat.go | 444 +++++++
lib/crunchstat/crunchstat_test.go | 62 +
sdk/cli/arvados-cli.gemspec | 4 +-
sdk/cli/bin/arv | 45 +-
sdk/cli/bin/arv-run-pipeline-instance | 33 +-
sdk/cli/bin/crunch-job | 73 +-
sdk/cli/test/binstub_output_coll_owner/python | 4 +
sdk/cli/test/test_arv-keep-get.rb | 12 +-
sdk/cli/test/test_arv-keep-put.rb | 8 +-
sdk/cli/test/test_crunch-job.rb | 9 +
sdk/cwl/arvados_cwl/__init__.py | 1241 +++++++++-----------
sdk/cwl/arvados_cwl/arv-cwl-schema.yml | 85 ++
sdk/cwl/arvados_cwl/arvcontainer.py | 341 ++++++
sdk/cwl/arvados_cwl/arvdocker.py | 77 ++
sdk/cwl/arvados_cwl/arvjob.py | 423 +++++++
sdk/cwl/arvados_cwl/arvtool.py | 42 +
sdk/cwl/arvados_cwl/arvworkflow.py | 157 +++
sdk/cwl/arvados_cwl/crunch_script.py | 123 ++
sdk/cwl/arvados_cwl/done.py | 91 ++
sdk/cwl/arvados_cwl/fsaccess.py | 220 ++++
sdk/cwl/arvados_cwl/pathmapper.py | 203 ++++
sdk/cwl/arvados_cwl/perf.py | 15 +
sdk/cwl/arvados_cwl/runner.py | 327 ++++++
sdk/cwl/gittaggers.py | 38 +-
sdk/cwl/setup.py | 25 +-
sdk/cwl/test_with_arvbox.sh | 37 +-
sdk/cwl/tests/arvados-tests.sh | 5 +
sdk/cwl/tests/arvados-tests.yml | 10 +
sdk/cwl/tests/dir-job.yml | 3 +
sdk/cwl/tests/hw.py | 1 +
sdk/cwl/tests/keep-dir-test-input.cwl | 21 +
sdk/cwl/tests/mock_discovery.py | 13 +
sdk/cwl/tests/runner.sh | 2 +
sdk/cwl/tests/submit_test_job.json | 17 +
sdk/cwl/tests/test_container.py | 315 +++++
sdk/cwl/tests/test_job.py | 255 +++-
sdk/cwl/tests/test_make_output.py | 73 ++
sdk/cwl/tests/test_pathmapper.py | 96 ++
sdk/cwl/tests/test_submit.py | 1058 ++++++++++++++++-
sdk/cwl/tests/test_urljoin.py | 56 +
.../tests/__init__.py => sdk/cwl/tests/testdir/a | 0
.../tests/__init__.py => sdk/cwl/tests/testdir/b | 0
.../tests/__init__.py => sdk/cwl/tests/testdir/c/d | 0
sdk/cwl/tests/tool/submit_tool.cwl | 4 +-
sdk/cwl/tests/wf/expect_arvworkflow.cwl | 24 +
sdk/cwl/tests/wf/expect_packed.cwl | 39 +
sdk/cwl/tests/wf/inputs_test.cwl | 10 +-
sdk/cwl/tests/wf/scatter2.cwl | 56 +
sdk/cwl/tests/wf/scatter2_subwf.cwl | 77 ++
.../wf/{submit_wf.cwl => submit_keepref_wf.cwl} | 15 +-
sdk/cwl/tests/wf/submit_wf.cwl | 10 +-
sdk/cwl/tests/wf/submit_wf_packed.cwl | 33 +
sdk/dev-jobs.dockerfile | 38 +
sdk/go/arvados/api_client_authorization.go | 12 +
sdk/go/arvados/client.go | 226 +++-
sdk/go/arvados/client_test.go | 70 ++
sdk/go/arvados/collection.go | 20 +-
sdk/go/arvados/container.go | 64 +
sdk/go/arvados/duration.go | 16 +-
sdk/go/arvados/error.go | 43 +
sdk/go/arvados/keep_service.go | 9 +
sdk/go/arvados/log.go | 25 +
sdk/go/arvados/resource_list.go | 13 +-
sdk/go/arvados/workflow.go | 22 +
sdk/go/arvadosclient/arvadosclient.go | 100 +-
sdk/go/arvadosclient/pool.go | 36 +-
sdk/go/arvadostest/fixtures.go | 33 +-
sdk/go/arvadostest/run_servers.go | 39 +-
sdk/go/config/dump.go | 27 +
sdk/go/config/load.go | 29 +
sdk/go/crunchrunner/crunchrunner.go | 128 +-
sdk/go/crunchrunner/crunchrunner_test.go | 68 +-
sdk/go/ctxlog/log.go | 59 +
sdk/go/dispatch/dispatch.go | 265 +++++
sdk/go/dispatch/dispatch_test.go | 43 +
sdk/go/dispatch/throttle.go | 58 +
sdk/go/dispatch/throttle_test.go | 38 +
sdk/go/httpserver/id_generator.go | 31 +
sdk/go/httpserver/request_limiter.go | 26 +-
sdk/go/keepclient/block_cache.go | 104 ++
sdk/go/keepclient/collectionreader.go | 321 ++---
sdk/go/keepclient/collectionreader_test.go | 112 +-
sdk/go/keepclient/discover.go | 24 +-
sdk/go/keepclient/discover_test.go | 48 +-
sdk/go/keepclient/keepclient.go | 18 +-
sdk/go/keepclient/keepclient_test.go | 93 +-
sdk/go/keepclient/support.go | 19 +-
sdk/go/logger/logger.go | 204 ----
sdk/go/logger/util.go | 20 -
sdk/go/manifest/manifest.go | 341 +++++-
sdk/go/manifest/manifest_test.go | 126 +-
sdk/go/manifest/testdata/long_manifest | 8 +-
sdk/go/manifest/testdata/short_manifest | 7 +-
sdk/go/stats/duration.go | 35 +
sdk/go/stats/duration_test.go | 23 +
sdk/go/streamer/streamer.go | 30 +-
sdk/go/streamer/streamer_test.go | 10 +
sdk/go/util/util.go | 34 -
sdk/java/ArvadosSDKJavaExample.java | 4 +-
sdk/java/ArvadosSDKJavaExampleWithPrompt.java | 2 +-
.../java/org/arvados/sdk/java/ArvadosTest.java | 5 +-
sdk/java/src/test/resources/first_pipeline.json | 1 -
sdk/pam/setup.py | 7 +
sdk/python/arvados/_version.py | 3 +
sdk/python/arvados/arvfile.py | 206 +++-
sdk/python/arvados/collection.py | 152 ++-
sdk/python/arvados/commands/arv_copy.py | 68 +-
sdk/python/arvados/commands/keepdocker.py | 115 +-
sdk/python/arvados/commands/ls.py | 6 +
sdk/python/arvados/commands/put.py | 759 +++++++++---
sdk/python/arvados/commands/run.py | 47 +-
sdk/python/arvados/commands/ws.py | 8 +
sdk/python/arvados/events.py | 78 +-
sdk/python/arvados/keep.py | 343 +++---
sdk/python/arvados/util.py | 2 +
sdk/python/bin/arv-get | 5 +
sdk/python/bin/arv-migrate-docker19 | 4 +
sdk/python/bin/arv-normalize | 14 +-
sdk/python/setup.py | 6 +-
sdk/python/tests/arvados_testutil.py | 13 +
sdk/python/tests/nginx.conf | 16 +
sdk/python/tests/run_test_server.py | 102 +-
sdk/python/tests/test_arv_copy.py | 29 +
sdk/python/tests/test_arv_keepdocker.py | 127 ++
sdk/python/tests/test_arv_ls.py | 15 +-
sdk/python/tests/test_arv_normalize.py | 27 +
sdk/python/tests/test_arv_put.py | 367 ++++--
sdk/python/tests/test_arv_run.py | 29 +
sdk/python/tests/test_arv_ws.py | 15 +
sdk/python/tests/test_arvfile.py | 76 +-
sdk/python/tests/test_collections.py | 63 +
sdk/python/tests/test_events.py | 124 +-
sdk/python/tests/test_keep_client.py | 100 +-
sdk/ruby/arvados.gemspec | 4 +-
services/api/Gemfile | 29 +-
services/api/Gemfile.lock | 253 ++--
.../api/app/controllers/application_controller.rb | 77 +-
.../arvados/v1/collections_controller.rb | 42 +-
.../arvados/v1/container_requests_controller.rb | 2 +
.../arvados/v1/containers_controller.rb | 28 +
.../controllers/arvados/v1/groups_controller.rb | 45 +-
.../app/controllers/arvados/v1/jobs_controller.rb | 173 +--
.../arvados/v1/pipeline_instances_controller.rb | 6 +
.../controllers/arvados/v1/schema_controller.rb | 37 +-
.../arvados/v1/user_agreements_controller.rb | 3 +-
.../app/controllers/arvados/v1/users_controller.rb | 2 +-
.../arvados/v1/virtual_machines_controller.rb | 2 +-
.../controllers/arvados/v1/workflows_controller.rb | 2 +
.../api/app/controllers/database_controller.rb | 2 +-
.../app/controllers/user_sessions_controller.rb | 3 +
services/api/app/middlewares/arvados_api_token.rb | 2 +-
services/api/app/middlewares/rack_socket.rb | 24 +-
.../api/app/models/api_client_authorization.rb | 4 +-
services/api/app/models/arvados_model.rb | 169 +--
services/api/app/models/blob.rb | 4 +-
services/api/app/models/collection.rb | 145 ++-
services/api/app/models/commit_ancestor.rb | 6 +-
services/api/app/models/container.rb | 185 ++-
services/api/app/models/container_request.rb | 234 +++-
services/api/app/models/job.rb | 272 ++++-
services/api/app/models/link.rb | 1 -
services/api/app/models/log.rb | 21 +-
services/api/app/models/node.rb | 42 +-
services/api/app/models/pipeline_instance.rb | 41 +
services/api/app/models/repository.rb | 2 +-
services/api/app/models/user.rb | 134 +--
services/api/app/models/workflow.rb | 46 +
services/api/config/application.default.yml | 66 +-
services/api/config/application.rb | 17 +
services/api/config/boot.rb | 2 +-
services/api/config/database.yml.example | 5 +-
services/api/config/initializers/inflections.rb | 8 +-
services/api/config/initializers/load_config.rb | 6 +-
services/api/config/initializers/lograge.rb | 14 +
.../api/config/initializers/noop_deep_munge.rb | 9 +
.../api/config/initializers/preload_all_models.rb | 2 +-
services/api/config/initializers/time_format.rb | 6 +
services/api/config/routes.rb | 9 +-
.../db/migrate/20160808151559_create_workflows.rb | 30 +
...9195557_add_script_parameters_digest_to_jobs.rb | 6 +
...0819195725_populate_script_parameters_digest.rb | 21 +
...160901210110_repair_script_parameters_digest.rb | 17 +
...20160909181442_rename_workflow_to_definition.rb | 10 +
.../migrate/20160926194129_add_container_count.rb | 9 +
...71346_add_use_existing_to_container_requests.rb | 9 +
...43147_add_scheduling_parameters_to_container.rb | 6 +
...add_output_and_log_uuid_to_container_request.rb | 22 +
..._log_uuids_to_container_request_search_index.rb | 21 +
.../20161213172944_full_text_search_indexes.rb | 33 +
...61222153434_split_expiry_to_trash_and_delete.rb | 42 +
...090712_add_output_name_to_container_requests.rb | 9 +
...utput_name_to_container_request_search_index.rb | 21 +
...170105160301_add_output_name_to_cr_fts_index.rb | 22 +
...t_finished_at_on_finished_pipeline_instances.rb | 5 +
...s_and_workflow_def_in_full_text_search_index.rb | 34 +
services/api/db/structure.sql | 323 +++--
services/api/lib/create_permission_view.sql | 41 +
services/api/lib/create_superuser_token.rb | 15 +-
services/api/lib/crunch_dispatch.rb | 113 +-
services/api/lib/current_api_client.rb | 10 +-
services/api/lib/eventbus.rb | 195 ++-
services/api/lib/has_uuid.rb | 4 +-
services/api/lib/josh_id.rb | 1 +
services/api/lib/load_param.rb | 7 +-
services/api/lib/salvage_collection.rb | 2 +-
services/api/lib/simulate_job_log.rb | 3 +
services/api/lib/sweep_trashed_collections.rb | 37 +
services/api/lib/tasks/config_dump.rake | 6 +
.../api/lib/tasks/delete_old_container_logs.rake | 14 +
services/api/lib/tasks/delete_old_job_logs.rake | 11 +-
services/api/script/arvados-git-sync.rb | 4 +-
.../api/script/migrate-gitolite-to-uuid-storage.rb | 4 +-
services/api/test/factories/api_client.rb | 2 +-
.../api/test/factories/api_client_authorization.rb | 2 +-
services/api/test/factories/user.rb | 12 +-
.../test/fixtures/api_client_authorizations.yml | 23 +-
services/api/test/fixtures/collections.yml | 101 +-
services/api/test/fixtures/container_requests.yml | 692 +++++++++++
services/api/test/fixtures/containers.yml | 177 ++-
services/api/test/fixtures/groups.yml | 6 +-
services/api/test/fixtures/job_tasks.yml | 11 +
services/api/test/fixtures/jobs.yml | 223 +++-
services/api/test/fixtures/links.yml | 101 ++
services/api/test/fixtures/logs.yml | 118 +-
services/api/test/fixtures/nodes.yml | 6 +-
services/api/test/fixtures/pipeline_instances.yml | 55 +-
services/api/test/fixtures/pipeline_templates.yml | 22 +
services/api/test/fixtures/users.yml | 16 +
services/api/test/fixtures/workflows.yml | 65 +
.../api_client_authorizations_controller_test.rb | 2 +-
.../arvados/v1/collections_controller_test.rb | 153 ++-
.../v1/container_requests_controller_test.rb | 22 +
.../arvados/v1/containers_controller_test.rb | 63 +-
.../api/test/functional/arvados/v1/filters_test.rb | 6 +-
.../arvados/v1/groups_controller_test.rb | 49 +-
.../arvados/v1/job_reuse_controller_test.rb | 6 +-
.../functional/arvados/v1/jobs_controller_test.rb | 17 +-
.../functional/arvados/v1/links_controller_test.rb | 4 +-
.../v1/pipeline_instances_controller_test.rb | 20 +
.../api/test/functional/arvados/v1/query_test.rb | 29 +
.../arvados/v1/repositories_controller_test.rb | 13 +-
.../arvados/v1/schema_controller_test.rb | 21 +-
.../functional/arvados/v1/users_controller_test.rb | 4 +-
.../arvados/v1/virtual_machines_controller_test.rb | 1 -
.../api/test/helpers/docker_migration_helper.rb | 13 +
services/api/test/helpers/users_test_helper.rb | 2 +-
.../api/test/integration/collections_api_test.rb | 38 +-
.../integration/collections_performance_test.rb | 6 +-
services/api/test/integration/cross_origin_test.rb | 2 +-
.../api/test/integration/database_reset_test.rb | 9 +-
services/api/test/integration/noop_deep_munge.rb | 35 +
services/api/test/integration/permissions_test.rb | 10 +-
services/api/test/integration/select_test.rb | 7 +
.../api/test/integration/user_sessions_test.rb | 23 +-
services/api/test/integration/websocket_test.rb | 170 ++-
.../test/tasks/delete_old_container_logs_test.rb | 50 +
services/api/test/test_helper.rb | 33 +-
services/api/test/unit/app_version_test.rb | 7 +-
services/api/test/unit/arvados_model_test.rb | 22 +
services/api/test/unit/authorized_key_test.rb | 2 +-
.../api/test/unit/collection_performance_test.rb | 5 +-
services/api/test/unit/collection_test.rb | 187 ++-
services/api/test/unit/commit_test.rb | 18 +-
services/api/test/unit/container_request_test.rb | 725 ++++++++----
services/api/test/unit/container_test.rb | 384 +++++-
.../api/test/unit/create_superuser_token_test.rb | 21 +-
services/api/test/unit/crunch_dispatch_test.rb | 23 +-
services/api/test/unit/fail_jobs_test.rb | 10 +-
services/api/test/unit/job_test.rb | 171 ++-
services/api/test/unit/link_test.rb | 24 +-
services/api/test/unit/log_test.rb | 70 +-
services/api/test/unit/node_test.rb | 56 +-
services/api/test/unit/owner_test.rb | 3 +-
services/api/test/unit/permission_test.rb | 37 +-
services/api/test/unit/pipeline_instance_test.rb | 9 +-
services/api/test/unit/repository_test.rb | 8 +-
services/api/test/unit/salvage_collection_test.rb | 12 +-
services/api/test/unit/user_test.rb | 21 +-
services/api/test/unit/workflow_test.rb | 125 ++
services/api/test/websocket_runner.rb | 48 -
services/arv-git-httpd/arvados-git-httpd.service | 13 +
services/arv-git-httpd/auth_handler.go | 28 +-
services/arv-git-httpd/doc.go | 35 -
services/arv-git-httpd/git_handler.go | 33 +-
services/arv-git-httpd/git_handler_test.go | 12 +-
services/arv-git-httpd/gitolite_test.go | 22 +-
services/arv-git-httpd/integration_test.go | 27 +-
services/arv-git-httpd/main.go | 83 +-
services/arv-git-httpd/server.go | 4 +-
services/arv-git-httpd/usage.go | 77 ++
services/arv-web/arv-web.py | 2 +-
.../crunch-dispatch-local/crunch-dispatch-local.go | 273 ++---
.../crunch-dispatch-local_test.go | 119 +-
.../crunch-dispatch-slurm/crunch-dispatch-slurm.go | 545 ++++-----
.../crunch-dispatch-slurm.service | 13 +
.../crunch-dispatch-slurm_test.go | 301 +++--
.../crunch-dispatch-slurm/crunch-finish-slurm.sh | 20 -
services/crunch-dispatch-slurm/script.go | 15 +
services/crunch-dispatch-slurm/script_test.go | 24 +
services/crunch-dispatch-slurm/squeue.go | 108 ++
services/crunch-dispatch-slurm/usage.go | 34 +
services/crunch-run/cgroup.go | 29 +
services/crunch-run/cgroup_test.go | 17 +
services/crunch-run/crunchrun.go | 675 ++++++++---
services/crunch-run/crunchrun_test.go | 818 ++++++++++---
services/crunch-run/logging.go | 122 +-
services/crunch-run/logging_test.go | 12 +-
services/crunch-run/upload.go | 66 +-
services/crunch-run/upload_test.go | 14 +-
services/crunchstat/crunchstat.go | 535 ++-------
services/crunchstat/crunchstat_test.go | 216 +++-
services/datamanager/collection/collection.go | 408 -------
services/datamanager/collection/collection_test.go | 202 ----
services/datamanager/collection/testing.go | 61 -
services/datamanager/datamanager.go | 220 ----
services/datamanager/datamanager_test.go | 733 ------------
services/datamanager/experimental/datamanager.py | 887 --------------
.../datamanager/experimental/datamanager_test.py | 41 -
services/datamanager/keep/keep.go | 541 ---------
services/datamanager/keep/keep_test.go | 278 -----
services/datamanager/loggerutil/loggerutil.go | 52 -
services/datamanager/summary/canonical_string.go | 30 -
services/datamanager/summary/file.go | 115 --
services/datamanager/summary/pull_list.go | 215 ----
services/datamanager/summary/pull_list_test.go | 272 -----
services/datamanager/summary/summary.go | 277 -----
services/datamanager/summary/summary_test.go | 220 ----
services/datamanager/summary/trash_list.go | 62 -
services/datamanager/summary/trash_list_test.go | 76 --
services/dockercleaner/MANIFEST.in | 1 +
.../dockercleaner/arvados-docker-cleaner.service | 19 +
services/dockercleaner/arvados_docker/cleaner.py | 120 +-
services/dockercleaner/setup.py | 18 +-
services/dockercleaner/tests/test_cleaner.py | 91 +-
services/fuse/arvados_fuse/__init__.py | 182 +--
services/fuse/arvados_fuse/_version.py | 3 +
services/fuse/arvados_fuse/command.py | 19 +-
services/fuse/arvados_fuse/fresh.py | 21 +-
services/fuse/arvados_fuse/fusedir.py | 73 +-
services/fuse/arvados_fuse/fusefile.py | 4 +-
services/fuse/setup.py | 3 +-
services/fuse/tests/integration_test.py | 52 +-
services/fuse/tests/mount_test_base.py | 28 +-
services/fuse/tests/test_cache.py | 4 +-
services/fuse/tests/test_command_args.py | 30 +
services/fuse/tests/test_inodes.py | 41 +-
services/fuse/tests/test_mount.py | 92 +-
services/fuse/tests/test_retry.py | 2 +-
services/fuse/tests/test_token_expiry.py | 68 ++
services/keep-balance/balance.go | 73 +-
services/keep-balance/balance_run_test.go | 28 +-
services/keep-balance/balance_test.go | 4 +-
services/keep-balance/collection.go | 108 +-
services/keep-balance/collection_test.go | 57 +
services/keep-balance/integration_test.go | 6 +-
services/keep-balance/keep-balance.service | 14 +
services/keep-balance/main.go | 58 +-
services/keep-balance/main_test.go | 7 +-
services/keep-balance/usage.go | 35 +-
services/keep-web/anonymous.go | 35 -
services/keep-web/doc.go | 61 +-
services/keep-web/handler.go | 103 +-
services/keep-web/handler_test.go | 90 +-
services/keep-web/keep-web.service | 13 +
services/keep-web/main.go | 72 +-
services/keep-web/ranges_test.go | 90 ++
services/keep-web/server.go | 17 +-
services/keep-web/server_test.go | 22 +-
services/keep-web/usage.go | 71 ++
services/keepproxy/keepproxy.go | 179 +--
services/keepproxy/keepproxy.service | 13 +
services/keepproxy/keepproxy_test.go | 62 +-
services/keepproxy/usage.go | 82 ++
services/keepstore/azure_blob_volume.go | 420 +++++--
services/keepstore/azure_blob_volume_test.go | 160 ++-
services/keepstore/bufferpool.go | 3 +-
services/keepstore/bufferpool_test.go | 4 +-
services/keepstore/collision.go | 16 +-
services/keepstore/config.go | 208 ++++
services/keepstore/config_test.go | 9 +
services/keepstore/count.go | 44 +
services/keepstore/deprecated.go | 43 +
services/keepstore/handler_test.go | 137 +--
services/keepstore/handlers.go | 214 ++--
.../keepstore/handlers_with_generic_volume_test.go | 15 +-
services/keepstore/keepstore.go | 285 +----
services/keepstore/keepstore.service | 13 +
services/keepstore/keepstore_test.go | 77 +-
services/keepstore/logging_router.go | 46 +-
services/keepstore/perms.go | 9 +-
services/keepstore/perms_test.go | 28 +-
services/keepstore/pipe_adapters.go | 89 ++
services/keepstore/pull_worker.go | 11 +-
services/keepstore/pull_worker_integration_test.go | 2 +-
services/keepstore/pull_worker_test.go | 36 +-
services/keepstore/s3_volume.go | 860 +++++++++++---
services/keepstore/s3_volume_test.go | 423 ++++++-
services/keepstore/stats_ticker.go | 50 +
services/keepstore/trash_worker.go | 20 +-
services/keepstore/trash_worker_test.go | 43 +-
services/keepstore/usage.go | 128 ++
services/keepstore/volume.go | 86 +-
services/keepstore/volume_generic_test.go | 188 +--
services/keepstore/volume_test.go | 18 +-
services/keepstore/volume_unix.go | 402 +++++--
services/keepstore/volume_unix_test.go | 185 ++-
services/keepstore/work_queue_test.go | 2 +-
services/login-sync/bin/arvados-login-sync | 99 +-
services/login-sync/test/test_add_user.rb | 2 +-
services/nodemanager/arvnodeman/_version.py | 3 +
.../arvnodeman/computenode/dispatch/__init__.py | 42 +-
.../arvnodeman/computenode/dispatch/slurm.py | 26 +-
.../arvnodeman/computenode/driver/__init__.py | 6 +
.../arvnodeman/computenode/driver/gce.py | 3 +-
services/nodemanager/arvnodeman/daemon.py | 52 +-
services/nodemanager/arvnodeman/jobqueue.py | 20 +-
services/nodemanager/arvnodeman/launcher.py | 12 +-
services/nodemanager/arvnodeman/nodelist.py | 42 +-
services/nodemanager/setup.py | 1 +
services/nodemanager/tests/test_arguments.py | 27 +
.../nodemanager/tests/test_computenode_dispatch.py | 63 +-
.../tests/test_computenode_dispatch_slurm.py | 25 +-
.../tests/test_computenode_driver_azure.py | 4 +-
services/nodemanager/tests/test_daemon.py | 57 +-
services/nodemanager/tests/test_failure.py | 4 +-
services/nodemanager/tests/test_jobqueue.py | 19 +-
services/nodemanager/tests/test_nodelist.py | 45 +-
services/nodemanager/tests/testutil.py | 21 +-
services/ws/arvados-ws.service | 13 +
services/ws/config.go | 40 +
services/ws/doc.go | 55 +
services/ws/event.go | 65 +
services/ws/event_source.go | 282 +++++
services/ws/event_source_test.go | 108 ++
services/ws/event_test.go | 21 +
services/ws/gocheck_test.go | 11 +
services/ws/handler.go | 235 ++++
services/ws/main.go | 41 +
services/ws/permission.go | 110 ++
services/ws/permission_test.go | 71 ++
services/ws/router.go | 140 +++
services/ws/server.go | 71 ++
services/ws/server_test.go | 61 +
services/ws/session.go | 33 +
services/ws/session_v0.go | 295 +++++
services/ws/session_v0_test.go | 238 ++++
services/ws/session_v1.go | 14 +
tools/arvbash/arvbash.sh | 124 ++
tools/arvbox/bin/arvbox | 53 +-
tools/arvbox/lib/arvbox/docker/Dockerfile.base | 61 +-
tools/arvbox/lib/arvbox/docker/Dockerfile.demo | 8 +-
tools/arvbox/lib/arvbox/docker/Dockerfile.dev | 11 +-
tools/arvbox/lib/arvbox/docker/api-setup.sh | 5 +-
tools/arvbox/lib/arvbox/docker/common.sh | 22 +-
tools/arvbox/lib/arvbox/docker/createusers.sh | 19 +-
tools/arvbox/lib/arvbox/docker/crunch-setup.sh | 1 +
.../lib/arvbox/docker/service/api/run-service | 4 +-
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commit 15b33da892e2d877bc70c8e9f2e2524907cf8972
Author: Tom Clegg <tom at curoverse.com>
Date: Wed Jun 1 10:35:21 2016 -0400
9216: Require size hints in manifest validation.
diff --git a/sdk/ruby/lib/arvados/keep.rb b/sdk/ruby/lib/arvados/keep.rb
index 489eeee..4797238 100644
--- a/sdk/ruby/lib/arvados/keep.rb
+++ b/sdk/ruby/lib/arvados/keep.rb
@@ -2,23 +2,11 @@ module Keep
class Locator
# A Locator is used to parse and manipulate Keep locator strings.
#
- # Locators obey the following syntax:
- #
- # locator ::= address hint*
- # address ::= digest size-hint
- # digest ::= <32 hexadecimal digits>
- # size-hint ::= "+" [0-9]+
- # hint ::= "+" hint-type hint-content
- # hint-type ::= [A-Z]
- # hint-content ::= [A-Za-z0-9 at _-]+
- #
- # Individual hints may have their own required format:
- #
- # sign-hint ::= "+A" <40 lowercase hex digits> "@" sign-timestamp
- # sign-timestamp ::= <8 lowercase hex digits>
+ # Locator format is documented at
+ # https://dev.arvados.org/projects/arvados/wiki/Keep_locator_format
attr_reader :hash, :hints, :size
- LOCATOR_REGEXP = /^([[:xdigit:]]{32})(\+([[:digit:]]+))?((\+([[:upper:]][[:alnum:]@_-]*))+)?\z/
+ LOCATOR_REGEXP = /^([0-9a-f]{32})(\+([0-9]+))((\+([A-Z][-A-Za-z0-9 at _]*))+)?\z/
def initialize(hasharg, sizearg, hintarg)
@hash = hasharg
diff --git a/sdk/ruby/test/test_keep_manifest.rb b/sdk/ruby/test/test_keep_manifest.rb
index fa1dc3f..6a696a4 100644
--- a/sdk/ruby/test/test_keep_manifest.rb
+++ b/sdk/ruby/test/test_keep_manifest.rb
@@ -249,6 +249,7 @@ class ManifestTest < Minitest::Test
[[false, nil],
[false, '+0'],
[false, 'd41d8cd98f00b204e9800998ecf8427'],
+ [false, 'd41d8cd98f00b204e9800998ecf8427e'],
[false, 'd41d8cd98f00b204e9800998ecf8427+0'],
[false, 'd41d8cd98f00b204e9800998ecf8427e0'],
[false, 'd41d8cd98f00b204e9800998ecf8427e0+0'],
@@ -262,14 +263,12 @@ class ManifestTest < Minitest::Test
[false, 'd41d8cd98f00b204e9800998ecf8427e+0++K'],
[false, 'd41d8cd98f00b204e9800998ecf8427e+0+K++'],
[false, 'd41d8cd98f00b204e9800998ecf8427e+0+K++Z'],
- [true, 'd41d8cd98f00b204e9800998ecf8427e', nil,nil,nil],
+ [false, 'd41d8cd98f00b204e9800998ecf8427e+Fizz+Buzz'],
+ [false, 'd41d8cd98f00b204e9800998ecf8427e+Fizz+0+Buzz'],
[true, 'd41d8cd98f00b204e9800998ecf8427e+0', '+0','0',nil],
[true, 'd41d8cd98f00b204e9800998ecf8427e+0+Fizz+Buzz','+0','0','+Fizz+Buzz'],
- [true, 'd41d8cd98f00b204e9800998ecf8427e+Fizz+Buzz', nil,nil,'+Fizz+Buzz'],
[true, 'd41d8cd98f00b204e9800998ecf8427e+0+Ad41d8cd98f00b204e9800998ecf8427e00000000+Foo', '+0','0','+Ad41d8cd98f00b204e9800998ecf8427e00000000+Foo'],
- [true, 'd41d8cd98f00b204e9800998ecf8427e+Ad41d8cd98f00b204e9800998ecf8427e00000000+Foo', nil,nil,'+Ad41d8cd98f00b204e9800998ecf8427e00000000+Foo'],
[true, 'd41d8cd98f00b204e9800998ecf8427e+0+Z', '+0','0','+Z'],
- [true, 'd41d8cd98f00b204e9800998ecf8427e+Z', nil,nil,'+Z'],
].each do |ok, locator, match2, match3, match4|
define_method "test_LOCATOR_REGEXP_on_#{locator.inspect}" do
match = Keep::Locator::LOCATOR_REGEXP.match locator
@@ -300,7 +299,7 @@ class ManifestTest < Minitest::Test
[false, " ", "Invalid manifest: does not end with newline"],
[true, ". d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n"],
[true, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n"],
- [true, ". d41d8cd98f00b204e9800998ecf8427e a41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n"], # 2 locators
+ [true, ". d41d8cd98f00b204e9800998ecf8427e+0 a41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n"], # 2 locators
[true, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:foo/bar.txt\n"],
[true, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:.foo.txt\n"],
[true, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:.foo\n"],
@@ -316,43 +315,45 @@ class ManifestTest < Minitest::Test
[true, ". 00000000000000000000000000000000+0 0:0:0\n"],
[true, ". 00000000000000000000000000000000+0 0:0:d41d8cd98f00b204e9800998ecf8427e+0+Ad41d8cd98f00b204e9800998ecf8427e00000000 at ffffffff\n"],
[true, ". d41d8cd98f00b204e9800998ecf8427e+0+Ad41d8cd98f00b204e9800998ecf8427e00000000 at ffffffff 0:0:empty.txt\n"],
- [false, '. d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt',
- "Invalid manifest: does not end with newline"],
- [false, "abc d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n",
+ "missing or invalid locator"],
+ [false, '. d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt',
+ "does not end with newline"],
+ [false, "abc d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n",
"invalid stream name \"abc\""],
- [false, "abc/./foo d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n",
+ [false, "abc/./foo d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n",
"invalid stream name \"abc/./foo\""],
- [false, "./abc/../foo d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n",
+ [false, "./abc/../foo d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n",
"invalid stream name \"./abc/../foo\""],
- [false, "./abc/. d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n",
+ [false, "./abc/. d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n",
"invalid stream name \"./abc/.\""],
- [false, "./abc/.. d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n",
+ [false, "./abc/.. d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n",
"invalid stream name \"./abc/..\""],
- [false, "./abc/./foo d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n",
+ [false, "./abc/./foo d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n",
"invalid stream name \"./abc/./foo\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:.\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:.\n",
"invalid file token \"0:0:.\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:..\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:..\n",
"invalid file token \"0:0:..\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:./abc.txt\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:./abc.txt\n",
"invalid file token \"0:0:./abc.txt\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:../abc.txt\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:../abc.txt\n",
"invalid file token \"0:0:../abc.txt\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt/.\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt/.\n",
"invalid file token \"0:0:abc.txt/.\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt/..\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt/..\n",
"invalid file token \"0:0:abc.txt/..\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:a/./bc.txt\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:a/./bc.txt\n",
"invalid file token \"0:0:a/./bc.txt\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e 0:0:a/../bc.txt\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:a/../bc.txt\n",
"invalid file token \"0:0:a/../bc.txt\""],
- [false, "./abc/./foo d41d8cd98f00b204e9800998ecf8427e 0:0:abc.txt\n",
+ [false, "./abc/./foo d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n",
"invalid stream name \"./abc/./foo\""],
[false, "d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n",
"invalid stream name \"d41d8cd98f00b204e9800998ecf8427e+0\""],
[false, ". d41d8cd98f00b204e9800998ecf8427 0:0:abc.txt\n",
"invalid locator \"d41d8cd98f00b204e9800998ecf8427\""],
- [false, ". d41d8cd98f00b204e9800998ecf8427e\n",
+ [false, ". d41d8cd98f00b204e9800998ecf8427e+0\n",
"Manifest invalid for stream 1: no file tokens"],
[false, ". d41d8cd98f00b204e9800998ecf8427e+0 0:0:abc.txt\n/dir1 d41d8cd98f00b204e9800998ecf842 0:0:abc.txt\n",
"Manifest invalid for stream 2: missing or invalid stream name \"/dir1\""],
-----------------------------------------------------------------------
hooks/post-receive
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