[ARVADOS] updated: 1.3.0-703-g4a27ec568
Git user
git at public.curoverse.com
Fri Apr 5 13:00:06 UTC 2019
Summary of changes:
build/run-tests.sh | 87 ++++++---
doc/_config.yml | 2 +
doc/api/methods/collections.html.textile.liquid | 2 +
doc/install/arvbox.html.textile.liquid | 37 +++-
.../install-dispatch-cloud.html.textile.liquid | 200 +++++++++++++++++++++
lib/cloud/azure/azure.go | 17 +-
lib/crunchstat/crunchstat.go | 9 +-
lib/dispatchcloud/container/queue.go | 14 +-
lib/dispatchcloud/container/queue_test.go | 10 ++
sdk/cwl/setup.py | 1 +
sdk/cwl/tests/federation/framework/check-exist.cwl | 5 +-
sdk/cwl/tests/federation/framework/prepare.cwl | 5 +-
sdk/go/arvados/client.go | 2 +-
sdk/python/tests/nginx.conf | 4 +
sdk/python/tests/run_test_server.py | 7 +-
sdk/python/tests/test_arv_put.py | 2 +-
services/api/app/models/collection.rb | 17 ++
services/api/config/database.yml.example | 4 +-
.../20190322174136_add_file_info_to_collection.rb | 63 +++++++
services/api/db/structure.sql | 6 +-
services/api/lib/group_pdhs.rb | 39 ++++
services/api/test/fixtures/collections.yml | 16 ++
.../arvados/v1/collections_controller_test.rb | 83 +++++++++
services/api/test/unit/collection_test.rb | 50 ++++++
services/api/test/unit/group_pdhs_test.rb | 27 +++
services/arv-git-httpd/gitolite_test.go | 2 +-
services/arv-git-httpd/integration_test.go | 2 +-
.../crunch-dispatch-local/crunch-dispatch-local.go | 40 ++++-
.../crunch-dispatch-local_test.go | 22 +--
services/crunch-run/crunchrun.go | 4 +-
services/keep-web/server_test.go | 11 +-
services/keepproxy/keepproxy.go | 4 +-
services/login-sync/Gemfile | 2 +-
services/login-sync/arvados-login-sync.gemspec | 2 +-
services/login-sync/bin/arvados-login-sync | 6 +-
services/login-sync/test/stubs.rb | 19 +-
services/login-sync/test/test_add_user.rb | 7 +-
tools/arvbox/bin/arvbox | 57 ++++--
tools/arvbox/lib/arvbox/docker/Dockerfile.base | 4 +-
tools/arvbox/lib/arvbox/docker/Dockerfile.dev | 4 +-
tools/arvbox/lib/arvbox/docker/api-setup.sh | 3 -
.../docker/service/slurmctld/log/main/.gitstub | 0
.../lib/arvbox/docker/service/slurmctld/log/run | 1 -
.../arvbox/lib/arvbox/docker/service/slurmctld/run | 34 ----
.../arvbox/docker/service/slurmd/log/main/.gitstub | 0
.../lib/arvbox/docker/service/slurmd/log/run | 1 -
tools/arvbox/lib/arvbox/docker/service/slurmd/run | 9 -
.../lib/arvbox/docker/service/sso/run-service | 6 +-
tools/arvbox/lib/arvbox/docker/waitforpostgres.sh | 8 +-
49 files changed, 786 insertions(+), 171 deletions(-)
create mode 100644 doc/install/install-dispatch-cloud.html.textile.liquid
create mode 100755 services/api/db/migrate/20190322174136_add_file_info_to_collection.rb
create mode 100644 services/api/lib/group_pdhs.rb
create mode 100644 services/api/test/unit/group_pdhs_test.rb
delete mode 100644 tools/arvbox/lib/arvbox/docker/service/slurmctld/log/main/.gitstub
delete mode 120000 tools/arvbox/lib/arvbox/docker/service/slurmctld/log/run
delete mode 100755 tools/arvbox/lib/arvbox/docker/service/slurmctld/run
delete mode 100644 tools/arvbox/lib/arvbox/docker/service/slurmd/log/main/.gitstub
delete mode 120000 tools/arvbox/lib/arvbox/docker/service/slurmd/log/run
delete mode 100755 tools/arvbox/lib/arvbox/docker/service/slurmd/run
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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 4a27ec5683273596d797e84924c4c583cfc53560
Author: Lucas Di Pentima <ldipentima at veritasgenetics.com>
Date: Fri Apr 5 09:59:26 2019 -0300
14873: Adjusts latest API Server changes to be rails5 worthy.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima at veritasgenetics.com>
diff --git a/services/api/db/migrate/20190322174136_add_file_info_to_collection.rb b/services/api/db/migrate/20190322174136_add_file_info_to_collection.rb
index 146e105af..61f9b2d88 100755
--- a/services/api/db/migrate/20190322174136_add_file_info_to_collection.rb
+++ b/services/api/db/migrate/20190322174136_add_file_info_to_collection.rb
@@ -5,7 +5,7 @@
require "arvados/keep"
require "group_pdhs"
-class AddFileInfoToCollection < ActiveRecord::Migration
+class AddFileInfoToCollection < ActiveRecord::Migration[4.2]
def do_batch(pdhs)
pdhs_str = ''
pdhs.each do |pdh|
diff --git a/services/api/db/structure.sql b/services/api/db/structure.sql
index cbe713a1c..bf7fdc805 100644
--- a/services/api/db/structure.sql
+++ b/services/api/db/structure.sql
@@ -3059,7 +3059,5 @@ INSERT INTO "schema_migrations" (version) VALUES
('20181011184200'),
('20181213183234'),
('20190214214814');
-
-
-INSERT INTO schema_migrations (version) VALUES ('20190322174136');
+('20190322174136');
diff --git a/services/api/test/functional/arvados/v1/collections_controller_test.rb b/services/api/test/functional/arvados/v1/collections_controller_test.rb
index 72c83e515..ee2b016cd 100644
--- a/services/api/test/functional/arvados/v1/collections_controller_test.rb
+++ b/services/api/test/functional/arvados/v1/collections_controller_test.rb
@@ -946,7 +946,7 @@ EOS
].each do |manifest, count, size|
test "create collection with valid manifest #{manifest} and expect file stats" do
authorize_with :active
- post :create, {
+ post :create, params: {
collection: {
manifest_text: manifest
}
@@ -959,7 +959,7 @@ EOS
test "update collection manifest and expect new file stats" do
authorize_with :active
- post :update, {
+ post :update, params: {
id: collections(:collection_owned_by_active_with_file_stats).uuid,
collection: {
manifest_text: ". d41d8cd98f00b204e9800998ecf8427e 0:34:foo.txt\n"
@@ -976,7 +976,7 @@ EOS
].each do |attribute, val|
test "create collection with #{attribute} and expect overwrite" do
authorize_with :active
- post :create, {
+ post :create, params: {
collection: {
manifest_text: ". d41d8cd98f00b204e9800998ecf8427e 0:34:foo.txt\n",
"#{attribute}": 10
@@ -993,7 +993,7 @@ EOS
].each do |attribute, val|
test "update collection with #{attribute} and expect ignore" do
authorize_with :active
- post :update, {
+ post :update, params: {
id: collections(:collection_owned_by_active_with_file_stats).uuid,
collection: {
"#{attribute}": 10
@@ -1010,7 +1010,7 @@ EOS
].each do |attribute, val|
test "update collection with #{attribute} and manifest and expect manifest values" do
authorize_with :active
- post :update, {
+ post :update, params: {
id: collections(:collection_owned_by_active_with_file_stats).uuid,
collection: {
manifest_text: ". d41d8cd98f00b204e9800998ecf8427e 0:34:foo.txt\n",
commit 248c7167e95d970b770c43102ee68cf1319973f7
Merge: a7d2e8bc0 4ec3bf28a
Author: Lucas Di Pentima <ldipentima at veritasgenetics.com>
Date: Fri Apr 5 09:26:15 2019 -0300
Merge branch 'master' into 14873-api-rails5-upgrade
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima at veritasgenetics.com>
diff --cc services/api/db/structure.sql
index 95c44f7f6,4520e1bc0..cbe713a1c
--- a/services/api/db/structure.sql
+++ b/services/api/db/structure.sql
@@@ -2872,190 -2854,373 +2874,192 @@@ CREATE INDEX workflows_search_idx ON pu
SET search_path TO "$user", public;
-INSERT INTO schema_migrations (version) VALUES ('20121016005009');
-
-INSERT INTO schema_migrations (version) VALUES ('20130105203021');
-
-INSERT INTO schema_migrations (version) VALUES ('20130105224358');
-
-INSERT INTO schema_migrations (version) VALUES ('20130105224618');
-
-INSERT INTO schema_migrations (version) VALUES ('20130107181109');
-
-INSERT INTO schema_migrations (version) VALUES ('20130107212832');
-
-INSERT INTO schema_migrations (version) VALUES ('20130109175700');
-
-INSERT INTO schema_migrations (version) VALUES ('20130109220548');
-
-INSERT INTO schema_migrations (version) VALUES ('20130113214204');
-
-INSERT INTO schema_migrations (version) VALUES ('20130116024233');
-
-INSERT INTO schema_migrations (version) VALUES ('20130116215213');
-
-INSERT INTO schema_migrations (version) VALUES ('20130118002239');
-
-INSERT INTO schema_migrations (version) VALUES ('20130122020042');
-
-INSERT INTO schema_migrations (version) VALUES ('20130122201442');
-
-INSERT INTO schema_migrations (version) VALUES ('20130122221616');
-
-INSERT INTO schema_migrations (version) VALUES ('20130123174514');
-
-INSERT INTO schema_migrations (version) VALUES ('20130123180224');
-
-INSERT INTO schema_migrations (version) VALUES ('20130123180228');
-
-INSERT INTO schema_migrations (version) VALUES ('20130125220425');
-
-INSERT INTO schema_migrations (version) VALUES ('20130128202518');
-
-INSERT INTO schema_migrations (version) VALUES ('20130128231343');
-
-INSERT INTO schema_migrations (version) VALUES ('20130130205749');
-
-INSERT INTO schema_migrations (version) VALUES ('20130203104818');
-
-INSERT INTO schema_migrations (version) VALUES ('20130203104824');
-
-INSERT INTO schema_migrations (version) VALUES ('20130203115329');
-
-INSERT INTO schema_migrations (version) VALUES ('20130207195855');
-
-INSERT INTO schema_migrations (version) VALUES ('20130218181504');
-
-INSERT INTO schema_migrations (version) VALUES ('20130226170000');
-
-INSERT INTO schema_migrations (version) VALUES ('20130313175417');
-
-INSERT INTO schema_migrations (version) VALUES ('20130315155820');
-
-INSERT INTO schema_migrations (version) VALUES ('20130315183626');
-
-INSERT INTO schema_migrations (version) VALUES ('20130315213205');
-
-INSERT INTO schema_migrations (version) VALUES ('20130318002138');
-
-INSERT INTO schema_migrations (version) VALUES ('20130319165853');
-
-INSERT INTO schema_migrations (version) VALUES ('20130319180730');
-
-INSERT INTO schema_migrations (version) VALUES ('20130319194637');
-
-INSERT INTO schema_migrations (version) VALUES ('20130319201431');
-
-INSERT INTO schema_migrations (version) VALUES ('20130319235957');
-
-INSERT INTO schema_migrations (version) VALUES ('20130320000107');
-
-INSERT INTO schema_migrations (version) VALUES ('20130326173804');
-
-INSERT INTO schema_migrations (version) VALUES ('20130326182917');
-
-INSERT INTO schema_migrations (version) VALUES ('20130415020241');
-
-INSERT INTO schema_migrations (version) VALUES ('20130425024459');
-
-INSERT INTO schema_migrations (version) VALUES ('20130425214427');
-
-INSERT INTO schema_migrations (version) VALUES ('20130523060112');
-
-INSERT INTO schema_migrations (version) VALUES ('20130523060213');
-
-INSERT INTO schema_migrations (version) VALUES ('20130524042319');
-
-INSERT INTO schema_migrations (version) VALUES ('20130528134100');
-
-INSERT INTO schema_migrations (version) VALUES ('20130606183519');
-
-INSERT INTO schema_migrations (version) VALUES ('20130608053730');
-
-INSERT INTO schema_migrations (version) VALUES ('20130610202538');
-
-INSERT INTO schema_migrations (version) VALUES ('20130611163736');
-
-INSERT INTO schema_migrations (version) VALUES ('20130612042554');
-
-INSERT INTO schema_migrations (version) VALUES ('20130617150007');
-
-INSERT INTO schema_migrations (version) VALUES ('20130626002829');
-
-INSERT INTO schema_migrations (version) VALUES ('20130626022810');
-
-INSERT INTO schema_migrations (version) VALUES ('20130627154537');
-
-INSERT INTO schema_migrations (version) VALUES ('20130627184333');
-
-INSERT INTO schema_migrations (version) VALUES ('20130708163414');
-
-INSERT INTO schema_migrations (version) VALUES ('20130708182912');
-
-INSERT INTO schema_migrations (version) VALUES ('20130708185153');
-
-INSERT INTO schema_migrations (version) VALUES ('20130724153034');
-
-INSERT INTO schema_migrations (version) VALUES ('20131007180607');
-
-INSERT INTO schema_migrations (version) VALUES ('20140117231056');
-
-INSERT INTO schema_migrations (version) VALUES ('20140124222114');
-
-INSERT INTO schema_migrations (version) VALUES ('20140129184311');
-
-INSERT INTO schema_migrations (version) VALUES ('20140317135600');
-
-INSERT INTO schema_migrations (version) VALUES ('20140319160547');
-
-INSERT INTO schema_migrations (version) VALUES ('20140321191343');
-
-INSERT INTO schema_migrations (version) VALUES ('20140324024606');
-
-INSERT INTO schema_migrations (version) VALUES ('20140325175653');
-
-INSERT INTO schema_migrations (version) VALUES ('20140402001908');
-
-INSERT INTO schema_migrations (version) VALUES ('20140407184311');
-
-INSERT INTO schema_migrations (version) VALUES ('20140421140924');
-
-INSERT INTO schema_migrations (version) VALUES ('20140421151939');
-
-INSERT INTO schema_migrations (version) VALUES ('20140421151940');
-
-INSERT INTO schema_migrations (version) VALUES ('20140422011506');
-
-INSERT INTO schema_migrations (version) VALUES ('20140423132913');
-
-INSERT INTO schema_migrations (version) VALUES ('20140423133559');
-
-INSERT INTO schema_migrations (version) VALUES ('20140501165548');
-
-INSERT INTO schema_migrations (version) VALUES ('20140519205916');
-
-INSERT INTO schema_migrations (version) VALUES ('20140527152921');
-
-INSERT INTO schema_migrations (version) VALUES ('20140530200539');
-
-INSERT INTO schema_migrations (version) VALUES ('20140601022548');
-
-INSERT INTO schema_migrations (version) VALUES ('20140602143352');
-
-INSERT INTO schema_migrations (version) VALUES ('20140607150616');
-
-INSERT INTO schema_migrations (version) VALUES ('20140611173003');
-
-INSERT INTO schema_migrations (version) VALUES ('20140627210837');
-
-INSERT INTO schema_migrations (version) VALUES ('20140709172343');
-
-INSERT INTO schema_migrations (version) VALUES ('20140714184006');
-
-INSERT INTO schema_migrations (version) VALUES ('20140811184643');
-
-INSERT INTO schema_migrations (version) VALUES ('20140817035914');
-
-INSERT INTO schema_migrations (version) VALUES ('20140818125735');
-
-INSERT INTO schema_migrations (version) VALUES ('20140826180337');
-
-INSERT INTO schema_migrations (version) VALUES ('20140828141043');
-
-INSERT INTO schema_migrations (version) VALUES ('20140909183946');
-
-INSERT INTO schema_migrations (version) VALUES ('20140911221252');
-
-INSERT INTO schema_migrations (version) VALUES ('20140918141529');
-
-INSERT INTO schema_migrations (version) VALUES ('20140918153541');
-
-INSERT INTO schema_migrations (version) VALUES ('20140918153705');
-
-INSERT INTO schema_migrations (version) VALUES ('20140924091559');
-
-INSERT INTO schema_migrations (version) VALUES ('20141111133038');
-
-INSERT INTO schema_migrations (version) VALUES ('20141208164553');
-
-INSERT INTO schema_migrations (version) VALUES ('20141208174553');
-
-INSERT INTO schema_migrations (version) VALUES ('20141208174653');
-
-INSERT INTO schema_migrations (version) VALUES ('20141208185217');
-
-INSERT INTO schema_migrations (version) VALUES ('20150122175935');
-
-INSERT INTO schema_migrations (version) VALUES ('20150123142953');
-
-INSERT INTO schema_migrations (version) VALUES ('20150203180223');
-
-INSERT INTO schema_migrations (version) VALUES ('20150206210804');
-
-INSERT INTO schema_migrations (version) VALUES ('20150206230342');
-
-INSERT INTO schema_migrations (version) VALUES ('20150216193428');
-
-INSERT INTO schema_migrations (version) VALUES ('20150303210106');
-
-INSERT INTO schema_migrations (version) VALUES ('20150312151136');
-
-INSERT INTO schema_migrations (version) VALUES ('20150317132720');
-
-INSERT INTO schema_migrations (version) VALUES ('20150324152204');
-
-INSERT INTO schema_migrations (version) VALUES ('20150423145759');
-
-INSERT INTO schema_migrations (version) VALUES ('20150512193020');
-
-INSERT INTO schema_migrations (version) VALUES ('20150526180251');
-
-INSERT INTO schema_migrations (version) VALUES ('20151202151426');
-
-INSERT INTO schema_migrations (version) VALUES ('20151215134304');
-
-INSERT INTO schema_migrations (version) VALUES ('20151229214707');
-
-INSERT INTO schema_migrations (version) VALUES ('20160208210629');
-
-INSERT INTO schema_migrations (version) VALUES ('20160209155729');
-
-INSERT INTO schema_migrations (version) VALUES ('20160324144017');
-
-INSERT INTO schema_migrations (version) VALUES ('20160506175108');
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-INSERT INTO schema_migrations (version) VALUES ('20160509143250');
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-INSERT INTO schema_migrations (version) VALUES ('20160808151559');
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-INSERT INTO schema_migrations (version) VALUES ('20160819195557');
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-INSERT INTO schema_migrations (version) VALUES ('20160819195725');
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-INSERT INTO schema_migrations (version) VALUES ('20160901210110');
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-INSERT INTO schema_migrations (version) VALUES ('20160909181442');
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-INSERT INTO schema_migrations (version) VALUES ('20160926194129');
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-INSERT INTO schema_migrations (version) VALUES ('20161019171346');
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-
-INSERT INTO schema_migrations (version) VALUES ('20181011184200');
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-INSERT INTO schema_migrations (version) VALUES ('20181213183234');
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+('20181011184200'),
+('20181213183234'),
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-INSERT INTO schema_migrations (version) VALUES ('20190214214814');
+ INSERT INTO schema_migrations (version) VALUES ('20190322174136');
+
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