[ARVADOS] updated: 802401710776e8efe1c7d7856b6e87d99fda178d
Git user
git at public.curoverse.com
Mon Mar 14 15:32:07 EDT 2016
Summary of changes:
apps/workbench/Gemfile.lock | 178 ++++++++++-----------
backports/deb-fuse/fpm-info.sh | 5 -
backports/deb-libfuse-dev/fpm-info.sh | 5 -
backports/python-llfuse/fpm-info.sh | 15 +-
backports/rpm-fuse-devel/fpm-info.sh | 5 -
backports/rpm-fuse/fpm-info.sh | 5 -
build/package-build-dockerfiles/Makefile | 2 +-
build/run-build-packages.sh | 17 +-
build/run-tests.sh | 13 +-
sdk/cwl/arvados_cwl/__init__.py | 13 +-
sdk/cwl/setup.py | 4 +-
.../cwl/tests/__init__.py | 0
sdk/cwl/tests/test_job.py | 77 +++++++++
services/api/Gemfile | 6 +-
services/api/Gemfile.lock | 18 +--
.../arvados/v1/repositories_controller.rb | 4 +-
services/api/app/models/collection.rb | 5 +
services/api/app/models/job.rb | 40 ++---
services/api/app/models/node.rb | 2 +-
services/api/config/boot.rb | 2 +-
services/api/config/initializers/load_config.rb | 4 +-
services/api/lib/crunch_dispatch.rb | 2 +-
services/api/script/arvados-git-sync.rb | 4 +-
.../api/script/migrate-gitolite-to-uuid-storage.rb | 4 +-
.../arvados/v1/collections_controller_test.rb | 2 +-
.../functional/arvados/v1/jobs_controller_test.rb | 2 +-
.../functional/arvados/v1/links_controller_test.rb | 2 +-
.../arvados/v1/repositories_controller_test.rb | 18 ++-
services/api/test/unit/app_version_test.rb | 2 +-
services/api/test/unit/commit_test.rb | 12 +-
services/api/test/unit/permission_test.rb | 2 +-
services/arv-git-httpd/gitolite_test.go | 14 +-
services/datamanager/datamanager.go | 2 +-
services/datamanager/datamanager_test.go | 26 ++-
services/fuse/arvados_fuse/__init__.py | 47 +++---
services/fuse/setup.py | 2 +-
services/fuse/tests/test_mount.py | 12 +-
services/nodemanager/arvnodeman/baseactor.py | 85 ++++++++++
services/nodemanager/arvnodeman/clientactor.py | 2 +-
.../arvnodeman/computenode/dispatch/__init__.py | 11 +-
services/nodemanager/arvnodeman/config.py | 4 +-
services/nodemanager/arvnodeman/daemon.py | 21 ++-
services/nodemanager/arvnodeman/fullstopactor.py | 17 --
services/nodemanager/arvnodeman/launcher.py | 12 +-
services/nodemanager/arvnodeman/timedcallback.py | 2 +-
services/nodemanager/tests/test_daemon.py | 1 +
services/nodemanager/tests/test_failure.py | 29 ++--
services/nodemanager/tests/testutil.py | 5 +-
48 files changed, 459 insertions(+), 303 deletions(-)
delete mode 100644 backports/deb-fuse/fpm-info.sh
delete mode 100644 backports/deb-libfuse-dev/fpm-info.sh
delete mode 100644 backports/rpm-fuse-devel/fpm-info.sh
delete mode 100644 backports/rpm-fuse/fpm-info.sh
copy apps/workbench/app/views/application/_breadcrumb_page_name.html.erb => sdk/cwl/tests/__init__.py (100%)
create mode 100644 sdk/cwl/tests/test_job.py
create mode 100644 services/nodemanager/arvnodeman/baseactor.py
delete mode 100644 services/nodemanager/arvnodeman/fullstopactor.py
discards 860ebb15dead1d708e8a871ecc8955705c6d7122 (commit)
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commit 802401710776e8efe1c7d7856b6e87d99fda178d
Author: Tom Clegg <tom at curoverse.com>
Date: Mon Mar 14 15:31:44 2016 -0400
5737: More Ruby 2.2 compat fixes
diff --git a/services/api/Gemfile b/services/api/Gemfile
index 43d0b67..efc0cad 100644
--- a/services/api/Gemfile
+++ b/services/api/Gemfile
@@ -9,7 +9,7 @@ group :test, :development do
gem 'factory_girl_rails'
gem 'database_cleaner'
gem 'ruby-prof'
- gem 'minitest', '~> 5.0'
+ gem 'test-unit', '~> 3.0'
# Note: "require: false" here tells bunder not to automatically
# 'require' the packages during application startup. Installation is
# still mandatory.
@@ -32,7 +32,7 @@ gem 'oj'
# Gems used only for assets and not required
# in production environments by default.
group :assets do
- gem 'sass-rails', '>= 3.2'
+ gem 'sass-rails', '~> 3.2'
gem 'coffee-rails', '~> 3.2'
# See https://github.com/sstephenson/execjs#readme for more supported runtimes
@@ -61,8 +61,8 @@ gem 'acts_as_api'
gem 'passenger'
-gem 'omniauth', '1.1.1'
-gem 'omniauth-oauth2', '1.1.1'
+gem 'omniauth', '~> 1.1.1'
+gem 'omniauth-oauth2', '~> 1.1.1'
gem 'andand'
diff --git a/services/api/Gemfile.lock b/services/api/Gemfile.lock
index 9854111..2599027 100644
--- a/services/api/Gemfile.lock
+++ b/services/api/Gemfile.lock
@@ -95,7 +95,7 @@ GEM
multi_json (>= 1.0.0)
signet (~> 0.4.5)
uuidtools (>= 2.1.0)
- hashie (1.2.0)
+ hashie (2.1.2)
highline (1.7.8)
hike (1.2.3)
httpauth (0.2.1)
@@ -115,7 +115,6 @@ GEM
treetop (~> 1.4.8)
metaclass (0.0.4)
mime-types (1.25.1)
- minitest (5.8.4)
mocha (1.1.0)
metaclass (~> 0.0.1)
multi_json (1.11.2)
@@ -134,8 +133,8 @@ GEM
multi_json (~> 1.0)
rack (~> 1.2)
oj (2.14.6)
- omniauth (1.1.1)
- hashie (~> 1.2)
+ omniauth (1.1.4)
+ hashie (>= 1.2, < 3)
rack
omniauth-oauth2 (1.1.1)
oauth2 (~> 0.8.0)
@@ -148,6 +147,7 @@ GEM
pg
rails (~> 3.1)
polyglot (0.3.5)
+ power_assert (0.2.7)
puma (3.1.0)
rack (1.4.7)
rack-cache (1.6.1)
@@ -171,7 +171,7 @@ GEM
rake (>= 0.8.7)
rdoc (~> 3.4)
thor (>= 0.14.6, < 2.0)
- rake (11.0.1)
+ rake (11.1.1)
rdoc (3.12.2)
json (~> 1.4)
ref (2.0.0)
@@ -200,6 +200,8 @@ GEM
rack (~> 1.0)
tilt (~> 1.1, != 1.3.0)
sshkey (1.8.0)
+ test-unit (3.1.7)
+ power_assert
test_after_commit (1.0.0)
activerecord (>= 3.2)
themes_for_rails (0.5.1)
@@ -236,12 +238,11 @@ DEPENDENCIES
faye-websocket
google-api-client (~> 0.6.3)
jquery-rails
- minitest (~> 5.0)
mocha
multi_json
oj
- omniauth (= 1.1.1)
- omniauth-oauth2 (= 1.1.1)
+ omniauth (~> 1.1.1)
+ omniauth-oauth2 (~> 1.1.1)
passenger
pg
pg_power
@@ -249,10 +250,11 @@ DEPENDENCIES
rails (~> 3.2)
ruby-prof
rvm-capistrano
- sass-rails (>= 3.2)
+ sass-rails (~> 3.2)
simplecov (~> 0.7.1)
simplecov-rcov
sshkey
+ test-unit (~> 3.0)
test_after_commit
themes_for_rails
therubyracer
diff --git a/services/api/app/models/collection.rb b/services/api/app/models/collection.rb
index f1e7b4f..cd2bd74 100644
--- a/services/api/app/models/collection.rb
+++ b/services/api/app/models/collection.rb
@@ -41,6 +41,11 @@ class Collection < ArvadosModel
)
end
+ def initialize *args
+ super
+ @signatures_checked = false
+ end
+
FILE_TOKEN = /^[[:digit:]]+:[[:digit:]]+:/
def check_signatures
return false if self.manifest_text.nil?
diff --git a/services/api/app/models/job.rb b/services/api/app/models/job.rb
index 6c24293..b65f70b 100644
--- a/services/api/app/models/job.rb
+++ b/services/api/app/models/job.rb
@@ -387,26 +387,8 @@ class Job < ArvadosModel
end
def ensure_no_collection_uuids_in_script_params
- # recursive_hash_search searches recursively through hashes and
- # arrays in 'thing' for string fields matching regular expression
- # 'pattern'. Returns true if pattern is found, false otherwise.
- def recursive_hash_search thing, pattern
- if thing.is_a? Hash
- thing.each do |k, v|
- return true if recursive_hash_search v, pattern
- end
- elsif thing.is_a? Array
- thing.each do |k|
- return true if recursive_hash_search k, pattern
- end
- elsif thing.is_a? String
- return true if thing.match pattern
- end
- false
- end
-
- # Fail validation if any script_parameters field includes a string containing a
- # collection uuid pattern.
+ # Fail validation if any script_parameters field includes a string
+ # containing a collection uuid pattern.
if self.script_parameters_changed?
if recursive_hash_search(self.script_parameters, Collection.uuid_regex)
self.errors.add :script_parameters, "must use portable_data_hash instead of collection uuid"
@@ -415,4 +397,22 @@ class Job < ArvadosModel
end
true
end
+
+ # recursive_hash_search searches recursively through hashes and
+ # arrays in 'thing' for string fields matching regular expression
+ # 'pattern'. Returns true if pattern is found, false otherwise.
+ def recursive_hash_search thing, pattern
+ if thing.is_a? Hash
+ thing.each do |k, v|
+ return true if recursive_hash_search v, pattern
+ end
+ elsif thing.is_a? Array
+ thing.each do |k|
+ return true if recursive_hash_search k, pattern
+ end
+ elsif thing.is_a? String
+ return true if thing.match pattern
+ end
+ false
+ end
end
diff --git a/services/api/app/models/node.rb b/services/api/app/models/node.rb
index abb46fd..0b84cdc 100644
--- a/services/api/app/models/node.rb
+++ b/services/api/app/models/node.rb
@@ -222,7 +222,7 @@ class Node < ArvadosModel
(0..Rails.configuration.max_compute_nodes-1).each do |slot_number|
hostname = hostname_for_slot(slot_number)
hostfile = File.join Rails.configuration.dns_server_conf_dir, "#{hostname}.conf"
- if !File.exists? hostfile
+ if !File.exist? hostfile
n = Node.where(:slot_number => slot_number).first
if n.nil? or n.ip_address.nil?
dns_server_update(hostname, '127.40.4.0')
diff --git a/services/api/config/boot.rb b/services/api/config/boot.rb
index 4489e58..f2830ae 100644
--- a/services/api/config/boot.rb
+++ b/services/api/config/boot.rb
@@ -3,4 +3,4 @@ require 'rubygems'
# Set up gems listed in the Gemfile.
ENV['BUNDLE_GEMFILE'] ||= File.expand_path('../../Gemfile', __FILE__)
-require 'bundler/setup' if File.exists?(ENV['BUNDLE_GEMFILE'])
+require 'bundler/setup' if File.exist?(ENV['BUNDLE_GEMFILE'])
diff --git a/services/api/config/initializers/load_config.rb b/services/api/config/initializers/load_config.rb
index de9770d..3a7f962 100644
--- a/services/api/config/initializers/load_config.rb
+++ b/services/api/config/initializers/load_config.rb
@@ -6,7 +6,7 @@ rescue LoadError
# configured by application.yml (i.e., here!) instead.
end
-if (File.exists?(File.expand_path '../omniauth.rb', __FILE__) and
+if (File.exist?(File.expand_path '../omniauth.rb', __FILE__) and
not defined? WARNED_OMNIAUTH_CONFIG)
Rails.logger.warn <<-EOS
DEPRECATED CONFIGURATION:
@@ -26,7 +26,7 @@ $application_config = {}
%w(application.default application).each do |cfgfile|
path = "#{::Rails.root.to_s}/config/#{cfgfile}.yml"
- if File.exists? path
+ if File.exist? path
yaml = ERB.new(IO.read path).result(binding)
confs = YAML.load(yaml)
# Ignore empty YAML file:
diff --git a/services/api/lib/crunch_dispatch.rb b/services/api/lib/crunch_dispatch.rb
index ce94f73..83cd1b9 100644
--- a/services/api/lib/crunch_dispatch.rb
+++ b/services/api/lib/crunch_dispatch.rb
@@ -27,7 +27,7 @@ class CrunchDispatch
@cgroup_root = ENV['CRUNCH_CGROUP_ROOT']
@arvados_internal = Rails.configuration.git_internal_dir
- if not File.exists? @arvados_internal
+ if not File.exist? @arvados_internal
$stderr.puts `mkdir -p #{@arvados_internal.shellescape} && git init --bare #{@arvados_internal.shellescape}`
raise "No internal git repository available" unless ($? == 0)
end
diff --git a/services/api/script/arvados-git-sync.rb b/services/api/script/arvados-git-sync.rb
index 3a8ed27..b785534 100755
--- a/services/api/script/arvados-git-sync.rb
+++ b/services/api/script/arvados-git-sync.rb
@@ -22,7 +22,7 @@ DEBUG = 1
# load and merge in the environment-specific application config info
# if present, overriding base config parameters as specified
path = File.absolute_path('../../config/arvados-clients.yml', __FILE__)
-if File.exists?(path) then
+if File.exist?(path) then
cp_config = YAML.load_file(path)[ENV['RAILS_ENV']]
else
puts "Please create a\n #{path}\n file"
@@ -214,7 +214,7 @@ end
begin
# Get our local gitolite-admin repo up to snuff
- if not File.exists?(gitolite_admin) then
+ if not File.exist?(gitolite_admin) then
ensure_directory(gitolite_tmpdir, 0700)
Dir.chdir(gitolite_tmpdir)
`git clone #{gitolite_url}`
diff --git a/services/api/script/migrate-gitolite-to-uuid-storage.rb b/services/api/script/migrate-gitolite-to-uuid-storage.rb
index 8db1a0e..169509f 100755
--- a/services/api/script/migrate-gitolite-to-uuid-storage.rb
+++ b/services/api/script/migrate-gitolite-to-uuid-storage.rb
@@ -35,7 +35,7 @@ DEBUG = 1
# load and merge in the environment-specific application config info
# if present, overriding base config parameters as specified
path = File.dirname(__FILE__) + '/config/arvados-clients.yml'
-if File.exists?(path) then
+if File.exist?(path) then
cp_config = YAML.load_file(path)[ENV['RAILS_ENV']]
else
puts "Please create a\n " + File.dirname(__FILE__) + "/config/arvados-clients.yml\n file"
@@ -186,7 +186,7 @@ end
begin
# Get our local gitolite-admin repo up to snuff
- if not File.exists?(gitolite_admin) then
+ if not File.exist?(gitolite_admin) then
ensure_directory(gitolite_tmpdir, 0700)
Dir.chdir(gitolite_tmpdir)
`git clone #{gitolite_url}`
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 a8583be..5aa96c8 100644
--- a/services/api/test/functional/arvados/v1/collections_controller_test.rb
+++ b/services/api/test/functional/arvados/v1/collections_controller_test.rb
@@ -753,7 +753,7 @@ EOS
].each do |description_size, expected_response|
test "create collection with description size #{description_size}
and expect response #{expected_response}" do
- skip "(Descriptions are not part of search indexes. Skip until full-text search
+ omit "(Descriptions are not part of search indexes. Skip until full-text search
is implemented, at which point replace with a search in description.)"
authorize_with :active
diff --git a/services/api/test/functional/arvados/v1/jobs_controller_test.rb b/services/api/test/functional/arvados/v1/jobs_controller_test.rb
index 1e1425e..e66eb0d 100644
--- a/services/api/test/functional/arvados/v1/jobs_controller_test.rb
+++ b/services/api/test/functional/arvados/v1/jobs_controller_test.rb
@@ -97,7 +97,7 @@ class Arvados::V1::JobsControllerTest < ActionController::TestCase
'server should correct bogus cancelled_at ' +
job['cancelled_at'])
assert_equal(true,
- File.exists?(Rails.configuration.crunch_refresh_trigger),
+ File.exist?(Rails.configuration.crunch_refresh_trigger),
'trigger file should be created when job is cancelled')
end
diff --git a/services/api/test/functional/arvados/v1/links_controller_test.rb b/services/api/test/functional/arvados/v1/links_controller_test.rb
index 1345701..af3cd3a 100644
--- a/services/api/test/functional/arvados/v1/links_controller_test.rb
+++ b/services/api/test/functional/arvados/v1/links_controller_test.rb
@@ -306,7 +306,7 @@ class Arvados::V1::LinksControllerTest < ActionController::TestCase
end
test "retrieve all permissions using generic links index api" do
- skip "(not implemented)"
+ omit "(not implemented)"
# Links.readable_by() does not return the full set of permission
# links that are visible to a user (i.e., all permission links
# whose head_uuid references an object for which the user has
diff --git a/services/api/test/unit/app_version_test.rb b/services/api/test/unit/app_version_test.rb
index 3e9b167..4718ac2 100644
--- a/services/api/test/unit/app_version_test.rb
+++ b/services/api/test/unit/app_version_test.rb
@@ -29,7 +29,7 @@ class AppVersionTest < ActiveSupport::TestCase
test 'override with file' do
path = Rails.root.join 'git-commit.version'
- assert(!File.exists?(path),
+ assert(!File.exist?(path),
"Packaged version file found in source tree: #{path}")
begin
File.open(path, 'w') do |f|
diff --git a/services/api/test/unit/commit_test.rb b/services/api/test/unit/commit_test.rb
index b57c23b..301e071 100644
--- a/services/api/test/unit/commit_test.rb
+++ b/services/api/test/unit/commit_test.rb
@@ -183,34 +183,34 @@ class CommitTest < ActiveSupport::TestCase
Dir.mktmpdir do |touchdir|
# invalid input to maximum
a = Commit.find_commit_range('active/foo', nil, "31ce37fe365b3dc204300a3e4c396ad333ed0556 ; touch #{touchdir}/uh_oh", nil)
- assert !File.exists?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'maximum' parameter of find_commit_range is exploitable"
+ assert !File.exist?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'maximum' parameter of find_commit_range is exploitable"
assert_equal [], a
# invalid input to maximum
a = Commit.find_commit_range('active/foo', nil, "$(uname>#{touchdir}/uh_oh)", nil)
- assert !File.exists?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'maximum' parameter of find_commit_range is exploitable"
+ assert !File.exist?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'maximum' parameter of find_commit_range is exploitable"
assert_equal [], a
# invalid input to minimum
a = Commit.find_commit_range('active/foo', "31ce37fe365b3dc204300a3e4c396ad333ed0556 ; touch #{touchdir}/uh_oh", "31ce37fe365b3dc204300a3e4c396ad333ed0556", nil)
- assert !File.exists?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'minimum' parameter of find_commit_range is exploitable"
+ assert !File.exist?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'minimum' parameter of find_commit_range is exploitable"
assert_equal [], a
# invalid input to minimum
a = Commit.find_commit_range('active/foo', "$(uname>#{touchdir}/uh_oh)", "31ce37fe365b3dc204300a3e4c396ad333ed0556", nil)
- assert !File.exists?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'minimum' parameter of find_commit_range is exploitable"
+ assert !File.exist?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'minimum' parameter of find_commit_range is exploitable"
assert_equal [], a
# invalid input to 'excludes'
# complains "fatal: bad object 077ba2ad3ea24a929091a9e6ce545c93199b8e57"
a = Commit.find_commit_range('active/foo', "31ce37fe365b3dc204300a3e4c396ad333ed0556", "077ba2ad3ea24a929091a9e6ce545c93199b8e57", ["4fe459abe02d9b365932b8f5dc419439ab4e2577 ; touch #{touchdir}/uh_oh"])
- assert !File.exists?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'excludes' parameter of find_commit_range is exploitable"
+ assert !File.exist?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'excludes' parameter of find_commit_range is exploitable"
assert_equal [], a
# invalid input to 'excludes'
# complains "fatal: bad object 077ba2ad3ea24a929091a9e6ce545c93199b8e57"
a = Commit.find_commit_range('active/foo', "31ce37fe365b3dc204300a3e4c396ad333ed0556", "077ba2ad3ea24a929091a9e6ce545c93199b8e57", ["$(uname>#{touchdir}/uh_oh)"])
- assert !File.exists?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'excludes' parameter of find_commit_range is exploitable"
+ assert !File.exist?("#{touchdir}/uh_oh"), "#{touchdir}/uh_oh should not exist, 'excludes' parameter of find_commit_range is exploitable"
assert_equal [], a
end
end
diff --git a/services/api/test/unit/permission_test.rb b/services/api/test/unit/permission_test.rb
index 4a6ddc6..bc60f3b 100644
--- a/services/api/test/unit/permission_test.rb
+++ b/services/api/test/unit/permission_test.rb
@@ -144,7 +144,7 @@ class PermissionTest < ActiveSupport::TestCase
# TODO(twp): fix bug #3091, which should fix this test.
test "can_manage permission on a non-group object" do
- skip
+ omit
set_user_from_auth :admin
ob = Specimen.create!
commit e02e412584726984a2d88d03e17f8fea8febe512
Author: Tom Clegg <tom at curoverse.com>
Date: Mon Mar 14 15:30:41 2016 -0400
5737: Fix ineffective test case
diff --git a/services/api/test/functional/arvados/v1/repositories_controller_test.rb b/services/api/test/functional/arvados/v1/repositories_controller_test.rb
index 241a34e..c709d98 100644
--- a/services/api/test/functional/arvados/v1/repositories_controller_test.rb
+++ b/services/api/test/functional/arvados/v1/repositories_controller_test.rb
@@ -197,8 +197,8 @@ class Arvados::V1::RepositoriesControllerTest < ActionController::TestCase
end
[
- {cfg: :git_repo_ssh_base, cfgval: "git at example.com:", match: %r"^git at example.com:/"},
- {cfg: :git_repo_ssh_base, cfgval: true, match: %r"^git at git.zzzzz.arvadosapi.com:/"},
+ {cfg: :git_repo_ssh_base, cfgval: "git at example.com:", match: %r"^git at example.com:"},
+ {cfg: :git_repo_ssh_base, cfgval: true, match: %r"^git at git.zzzzz.arvadosapi.com:"},
{cfg: :git_repo_ssh_base, cfgval: false, refute: /^git@/ },
{cfg: :git_repo_https_base, cfgval: "https://example.com/", match: %r"https://example.com/"},
{cfg: :git_repo_https_base, cfgval: true, match: %r"^https://git.zzzzz.arvadosapi.com/"},
@@ -209,15 +209,17 @@ class Arvados::V1::RepositoriesControllerTest < ActionController::TestCase
authorize_with :active
get :index
assert_response :success
- json_response['items'].each do |r|
+ assert json_response['items'].any? do |r|
if expect[:refute]
r['clone_urls'].each do |u|
refute_match expect[:refute], u
end
else
- assert r['clone_urls'].any? do |u|
- expect[:prefix].match u
- end
+ assert_match expect[:match], u
+ assert((r['clone_urls'].any? do |u|
+ expect[:match].match u
+ end),
+ "no match for #{expect[:match]} in #{r['clone_urls'].inspect}")
end
end
end
commit ca1532484ea34e86a5a237b7334e1c7ffd5c730c
Author: Tom Clegg <tom at curoverse.com>
Date: Thu Mar 10 15:40:18 2016 -0500
5737: Update workbench bundle for ruby 2.2 compat
diff --git a/apps/workbench/Gemfile.lock b/apps/workbench/Gemfile.lock
index b4e2400..367abfd 100644
--- a/apps/workbench/Gemfile.lock
+++ b/apps/workbench/Gemfile.lock
@@ -9,39 +9,39 @@ GEM
remote: https://rubygems.org/
specs:
RedCloth (4.2.9)
- actionmailer (4.1.12)
- actionpack (= 4.1.12)
- actionview (= 4.1.12)
+ actionmailer (4.1.15)
+ actionpack (= 4.1.15)
+ actionview (= 4.1.15)
mail (~> 2.5, >= 2.5.4)
- actionpack (4.1.12)
- actionview (= 4.1.12)
- activesupport (= 4.1.12)
+ actionpack (4.1.15)
+ actionview (= 4.1.15)
+ activesupport (= 4.1.15)
rack (~> 1.5.2)
rack-test (~> 0.6.2)
- actionview (4.1.12)
- activesupport (= 4.1.12)
+ actionview (4.1.15)
+ activesupport (= 4.1.15)
builder (~> 3.1)
erubis (~> 2.7.0)
- activemodel (4.1.12)
- activesupport (= 4.1.12)
+ activemodel (4.1.15)
+ activesupport (= 4.1.15)
builder (~> 3.1)
- activerecord (4.1.12)
- activemodel (= 4.1.12)
- activesupport (= 4.1.12)
+ activerecord (4.1.15)
+ activemodel (= 4.1.15)
+ activesupport (= 4.1.15)
arel (~> 5.0.0)
- activerecord-nulldb-adapter (0.3.1)
+ activerecord-nulldb-adapter (0.3.2)
activerecord (>= 2.0.0)
- activesupport (4.1.12)
+ activesupport (4.1.15)
i18n (~> 0.6, >= 0.6.9)
json (~> 1.7, >= 1.7.7)
minitest (~> 5.1)
thread_safe (~> 0.1)
tzinfo (~> 1.1)
- addressable (2.3.6)
+ addressable (2.4.0)
andand (1.3.3)
- angularjs-rails (1.3.8)
+ angularjs-rails (1.5.0)
arel (5.0.1.20140414130214)
- arvados (0.1.20150511150219)
+ arvados (0.1.20151207150126)
activesupport (>= 3.2.13)
andand (~> 1.3, >= 1.3.3)
google-api-client (~> 0.6.3, >= 0.6.3)
@@ -58,42 +58,38 @@ GEM
bootstrap-x-editable-rails (1.5.1.1)
railties (>= 3.0)
builder (3.2.2)
- byebug (3.5.1)
- columnize (~> 0.8)
- debugger-linecache (~> 1.2)
- slop (~> 3.6)
- capistrano (2.15.5)
+ byebug (8.2.2)
+ capistrano (2.15.7)
highline
net-scp (>= 1.0.0)
net-sftp (>= 2.0.0)
net-ssh (>= 2.0.14)
net-ssh-gateway (>= 1.1.0)
- capybara (2.5.0)
+ capybara (2.6.2)
+ addressable
mime-types (>= 1.16)
nokogiri (>= 1.3.3)
rack (>= 1.0.0)
rack-test (>= 0.5.4)
xpath (~> 2.0)
- childprocess (0.5.6)
+ childprocess (0.5.9)
ffi (~> 1.0, >= 1.0.11)
cliver (0.3.2)
- coffee-rails (4.1.0)
+ coffee-rails (4.1.1)
coffee-script (>= 2.2.0)
- railties (>= 4.0.0, < 5.0)
- coffee-script (2.3.0)
+ railties (>= 4.0.0, < 5.1.x)
+ coffee-script (2.4.1)
coffee-script-source
execjs
- coffee-script-source (1.8.0)
- columnize (0.9.0)
+ coffee-script-source (1.10.0)
commonjs (0.2.7)
- daemon_controller (1.2.0)
- debugger-linecache (1.2.0)
+ concurrent-ruby (1.0.1)
deep_merge (1.0.1)
docile (1.1.5)
erubis (2.7.0)
- execjs (2.2.2)
+ execjs (2.6.0)
extlib (0.9.16)
- faraday (0.8.9)
+ faraday (0.8.11)
multipart-post (~> 1.2.0)
fast_stack (0.1.0)
rake
@@ -111,11 +107,11 @@ GEM
multi_json (>= 1.0.0)
signet (~> 0.4.5)
uuidtools (>= 2.1.0)
- headless (1.0.2)
- highline (1.6.21)
- httpclient (2.6.0.1)
+ headless (2.2.2)
+ highline (1.7.8)
+ httpclient (2.7.1)
i18n (0.7.0)
- jquery-rails (3.1.2)
+ jquery-rails (3.1.4)
railties (>= 3.0, < 5.0)
thor (>= 0.14, < 2.0)
json (1.8.3)
@@ -125,16 +121,18 @@ GEM
addressable (~> 2.3)
less (2.6.0)
commonjs (~> 0.2.7)
- less-rails (2.6.0)
- actionpack (>= 3.1)
+ less-rails (2.7.1)
+ actionpack (>= 4.0)
less (~> 2.6.0)
- libv8 (3.16.14.7)
+ sprockets (> 2, < 4)
+ tilt
+ libv8 (3.16.14.13)
mail (2.6.3)
mime-types (>= 1.16, < 3)
metaclass (0.0.4)
- mime-types (2.99)
- mini_portile (0.6.2)
- minitest (5.7.0)
+ mime-types (2.99.1)
+ mini_portile2 (2.0.0)
+ minitest (5.8.4)
mocha (1.1.0)
metaclass (~> 0.0.1)
morrisjs-rails (0.5.1)
@@ -145,64 +143,63 @@ GEM
net-ssh (>= 2.6.5)
net-sftp (2.1.2)
net-ssh (>= 2.6.5)
- net-ssh (2.9.2)
+ net-ssh (3.0.2)
net-ssh-gateway (1.2.0)
net-ssh (>= 2.6.5)
- nokogiri (1.6.6.4)
- mini_portile (~> 0.6.0)
- oj (2.11.2)
- passenger (4.0.57)
- daemon_controller (>= 1.2.0)
+ nokogiri (1.6.7.2)
+ mini_portile2 (~> 2.0.0.rc2)
+ oj (2.14.6)
+ passenger (5.0.26)
rack
rake (>= 0.8.1)
piwik_analytics (1.0.2)
actionpack
activesupport
rails (>= 3.0.0)
- poltergeist (1.5.1)
+ poltergeist (1.9.0)
capybara (~> 2.1)
cliver (~> 0.3.1)
multi_json (~> 1.0)
websocket-driver (>= 0.2.0)
rack (1.5.5)
- rack-mini-profiler (0.9.2)
- rack (>= 1.1.3)
+ rack-mini-profiler (0.9.9.2)
+ rack (>= 1.2.0)
rack-test (0.6.3)
rack (>= 1.0)
- rails (4.1.12)
- actionmailer (= 4.1.12)
- actionpack (= 4.1.12)
- actionview (= 4.1.12)
- activemodel (= 4.1.12)
- activerecord (= 4.1.12)
- activesupport (= 4.1.12)
+ rails (4.1.15)
+ actionmailer (= 4.1.15)
+ actionpack (= 4.1.15)
+ actionview (= 4.1.15)
+ activemodel (= 4.1.15)
+ activerecord (= 4.1.15)
+ activesupport (= 4.1.15)
bundler (>= 1.3.0, < 2.0)
- railties (= 4.1.12)
+ railties (= 4.1.15)
sprockets-rails (~> 2.0)
- rails-perftest (0.0.5)
- railties (4.1.12)
- actionpack (= 4.1.12)
- activesupport (= 4.1.12)
+ rails-perftest (0.0.6)
+ railties (4.1.15)
+ actionpack (= 4.1.15)
+ activesupport (= 4.1.15)
rake (>= 0.8.7)
thor (>= 0.18.1, < 2.0)
- rake (10.4.2)
- rake-compiler (0.9.5)
+ rake (11.0.1)
+ rake-compiler (0.9.6)
rake
raphael-rails (2.1.2)
- ref (1.0.5)
+ ref (2.0.0)
ruby-debug-passenger (0.2.0)
- ruby-prof (0.15.2)
- rubyzip (1.1.7)
- rvm-capistrano (1.5.5)
+ ruby-prof (0.15.9)
+ rubyzip (1.2.0)
+ rvm-capistrano (1.5.6)
capistrano (~> 2.15.4)
- sass (3.4.9)
- sass-rails (5.0.1)
+ sass (3.4.21)
+ sass-rails (5.0.4)
railties (>= 4.0.0, < 5.0)
sass (~> 3.1)
sprockets (>= 2.8, < 4.0)
sprockets-rails (>= 2.0, < 4.0)
- tilt (~> 1.1)
- selenium-webdriver (2.48.1)
+ tilt (>= 1.1, < 3)
+ selenium-webdriver (2.52.0)
childprocess (~> 0.5)
multi_json (~> 1.0)
rubyzip (~> 1.0)
@@ -212,37 +209,37 @@ GEM
faraday (~> 0.8.1)
jwt (>= 0.1.5)
multi_json (>= 1.0.0)
- simplecov (0.9.1)
+ simplecov (0.11.2)
docile (~> 1.1.0)
- multi_json (~> 1.0)
- simplecov-html (~> 0.8.0)
- simplecov-html (0.8.0)
+ json (~> 1.8)
+ simplecov-html (~> 0.10.0)
+ simplecov-html (0.10.0)
simplecov-rcov (0.2.3)
simplecov (>= 0.4.1)
- slop (3.6.0)
- sprockets (3.2.0)
- rack (~> 1.0)
- sprockets-rails (2.3.2)
+ sprockets (3.5.2)
+ concurrent-ruby (~> 1.0)
+ rack (> 1, < 3)
+ sprockets-rails (2.3.3)
actionpack (>= 3.0)
activesupport (>= 3.0)
sprockets (>= 2.8, < 4.0)
- sshkey (1.6.1)
- therubyracer (0.12.1)
+ sshkey (1.8.0)
+ therubyracer (0.12.2)
libv8 (~> 3.16.14.0)
ref
thor (0.19.1)
thread_safe (0.3.5)
- tilt (1.4.1)
+ tilt (2.0.2)
tzinfo (1.2.2)
thread_safe (~> 0.1)
- uglifier (2.7.0)
+ uglifier (2.7.2)
execjs (>= 0.3.0)
json (>= 1.8.0)
uuidtools (2.1.5)
websocket (1.2.2)
- websocket-driver (0.5.1)
+ websocket-driver (0.6.3)
websocket-extensions (>= 0.1.0)
- websocket-extensions (0.1.1)
+ websocket-extensions (0.1.2)
wiselinks (1.2.1)
xpath (2.0.0)
nokogiri (~> 1.3)
@@ -294,3 +291,6 @@ DEPENDENCIES
therubyracer
uglifier (>= 1.0.3)
wiselinks
+
+BUNDLED WITH
+ 1.11.2
commit 611ba5688bb8f586778b24f51be1cfd3fabd7a73
Author: Tom Clegg <tom at curoverse.com>
Date: Thu Mar 10 14:59:50 2016 -0500
5737: Update bundle for ruby 2.2 compat
diff --git a/.ruby-version b/.ruby-version
new file mode 100644
index 0000000..8bbe6cf
--- /dev/null
+++ b/.ruby-version
@@ -0,0 +1 @@
+2.2
diff --git a/services/api/Gemfile b/services/api/Gemfile
index 48998aa..43d0b67 100644
--- a/services/api/Gemfile
+++ b/services/api/Gemfile
@@ -1,6 +1,6 @@
source 'https://rubygems.org'
-gem 'rails', '~> 3.2.0'
+gem 'rails', '~> 3.2'
# Bundle edge Rails instead:
# gem 'rails', :git => 'git://github.com/rails/rails.git'
@@ -9,6 +9,7 @@ group :test, :development do
gem 'factory_girl_rails'
gem 'database_cleaner'
gem 'ruby-prof'
+ gem 'minitest', '~> 5.0'
# Note: "require: false" here tells bunder not to automatically
# 'require' the packages during application startup. Installation is
# still mandatory.
@@ -31,8 +32,8 @@ gem 'oj'
# Gems used only for assets and not required
# in production environments by default.
group :assets do
- gem 'sass-rails', '>= 3.2.0'
- gem 'coffee-rails', '~> 3.2.0'
+ gem 'sass-rails', '>= 3.2'
+ gem 'coffee-rails', '~> 3.2'
# See https://github.com/sstephenson/execjs#readme for more supported runtimes
gem 'therubyracer'
diff --git a/services/api/Gemfile.lock b/services/api/Gemfile.lock
index ac6be5a..9854111 100644
--- a/services/api/Gemfile.lock
+++ b/services/api/Gemfile.lock
@@ -1,12 +1,12 @@
GEM
remote: https://rubygems.org/
specs:
- actionmailer (3.2.17)
- actionpack (= 3.2.17)
+ actionmailer (3.2.22.2)
+ actionpack (= 3.2.22.2)
mail (~> 2.5.4)
- actionpack (3.2.17)
- activemodel (= 3.2.17)
- activesupport (= 3.2.17)
+ actionpack (3.2.22.2)
+ activemodel (= 3.2.22.2)
+ activesupport (= 3.2.22.2)
builder (~> 3.0.0)
erubis (~> 2.7.0)
journey (~> 1.0.4)
@@ -14,34 +14,34 @@ GEM
rack-cache (~> 1.2)
rack-test (~> 0.6.1)
sprockets (~> 2.2.1)
- activemodel (3.2.17)
- activesupport (= 3.2.17)
+ activemodel (3.2.22.2)
+ activesupport (= 3.2.22.2)
builder (~> 3.0.0)
- activerecord (3.2.17)
- activemodel (= 3.2.17)
- activesupport (= 3.2.17)
+ activerecord (3.2.22.2)
+ activemodel (= 3.2.22.2)
+ activesupport (= 3.2.22.2)
arel (~> 3.0.2)
tzinfo (~> 0.3.29)
- activeresource (3.2.17)
- activemodel (= 3.2.17)
- activesupport (= 3.2.17)
- activesupport (3.2.17)
+ activeresource (3.2.22.2)
+ activemodel (= 3.2.22.2)
+ activesupport (= 3.2.22.2)
+ activesupport (3.2.22.2)
i18n (~> 0.6, >= 0.6.4)
multi_json (~> 1.0)
acts_as_api (0.4.2)
activemodel (>= 3.0.0)
activesupport (>= 3.0.0)
rack (>= 1.1.0)
- addressable (2.3.8)
+ addressable (2.4.0)
andand (1.3.3)
arel (3.0.3)
- arvados (0.1.20150615153458)
+ arvados (0.1.20151207150126)
activesupport (>= 3.2.13)
andand (~> 1.3, >= 1.3.3)
google-api-client (~> 0.6.3, >= 0.6.3)
json (~> 1.7, >= 1.7.7)
jwt (>= 0.1.5, < 1.0.0)
- arvados-cli (0.1.20151207150126)
+ arvados-cli (0.1.20160302214005)
activesupport (~> 3.2, >= 3.2.13)
andand (~> 1.3, >= 1.3.3)
arvados (~> 0.1, >= 0.1.20150128223554)
@@ -56,36 +56,35 @@ GEM
extlib (>= 0.9.15)
multi_json (>= 1.0.0)
builder (3.0.4)
- capistrano (2.15.5)
+ capistrano (2.15.7)
highline
net-scp (>= 1.0.0)
net-sftp (>= 2.0.0)
net-ssh (>= 2.0.14)
net-ssh-gateway (>= 1.1.0)
- coffee-rails (3.2.1)
+ coffee-rails (3.2.2)
coffee-script (>= 2.2.0)
- railties (~> 3.2.0.beta)
- coffee-script (2.2.0)
+ railties (~> 3.2.0)
+ coffee-script (2.4.1)
coffee-script-source
execjs
- coffee-script-source (1.7.0)
- curb (0.8.8)
- daemon_controller (1.2.0)
- database_cleaner (1.2.0)
+ coffee-script-source (1.10.0)
+ curb (0.9.1)
+ database_cleaner (1.5.1)
erubis (2.7.0)
- eventmachine (1.0.3)
- execjs (2.0.2)
+ eventmachine (1.0.9.1)
+ execjs (2.6.0)
extlib (0.9.16)
- factory_girl (4.4.0)
+ factory_girl (4.5.0)
activesupport (>= 3.0.0)
- factory_girl_rails (4.4.1)
- factory_girl (~> 4.4.0)
+ factory_girl_rails (4.6.0)
+ factory_girl (~> 4.5.0)
railties (>= 3.0.0)
- faraday (0.8.9)
+ faraday (0.8.11)
multipart-post (~> 1.2.0)
- faye-websocket (0.7.2)
+ faye-websocket (0.10.3)
eventmachine (>= 0.12.0)
- websocket-driver (>= 0.3.1)
+ websocket-driver (>= 0.5.1)
google-api-client (0.6.4)
addressable (>= 2.3.2)
autoparse (>= 0.3.3)
@@ -97,12 +96,12 @@ GEM
signet (~> 0.4.5)
uuidtools (>= 2.1.0)
hashie (1.2.0)
- highline (1.6.21)
+ highline (1.7.8)
hike (1.2.3)
httpauth (0.2.1)
i18n (0.7.0)
journey (1.0.4)
- jquery-rails (3.1.0)
+ jquery-rails (3.1.4)
railties (>= 3.0, < 5.0)
thor (>= 0.14, < 2.0)
json (1.8.3)
@@ -110,21 +109,22 @@ GEM
multi_json (>= 1.5)
launchy (2.4.3)
addressable (~> 2.3)
- libv8 (3.16.14.3)
+ libv8 (3.16.14.13)
mail (2.5.4)
mime-types (~> 1.16)
treetop (~> 1.4.8)
metaclass (0.0.4)
mime-types (1.25.1)
+ minitest (5.8.4)
mocha (1.1.0)
metaclass (~> 0.0.1)
- multi_json (1.11.1)
+ multi_json (1.11.2)
multipart-post (1.2.0)
- net-scp (1.2.0)
+ net-scp (1.2.1)
net-ssh (>= 2.6.5)
net-sftp (2.1.2)
net-ssh (>= 2.6.5)
- net-ssh (2.8.0)
+ net-ssh (3.0.2)
net-ssh-gateway (1.2.0)
net-ssh (>= 2.6.5)
oauth2 (0.8.1)
@@ -133,54 +133,52 @@ GEM
jwt (~> 0.1.4)
multi_json (~> 1.0)
rack (~> 1.2)
- oj (2.11.4)
+ oj (2.14.6)
omniauth (1.1.1)
hashie (~> 1.2)
rack
omniauth-oauth2 (1.1.1)
oauth2 (~> 0.8.0)
omniauth (~> 1.0)
- passenger (4.0.41)
- daemon_controller (>= 1.2.0)
+ passenger (5.0.26)
rack
rake (>= 0.8.1)
- pg (0.17.1)
+ pg (0.18.4)
pg_power (1.6.4)
pg
rails (~> 3.1)
- polyglot (0.3.4)
- puma (2.8.2)
- rack (>= 1.1, < 2.0)
- rack (1.4.5)
- rack-cache (1.2)
+ polyglot (0.3.5)
+ puma (3.1.0)
+ rack (1.4.7)
+ rack-cache (1.6.1)
rack (>= 0.4)
rack-ssl (1.3.4)
rack
- rack-test (0.6.2)
+ rack-test (0.6.3)
rack (>= 1.0)
- rails (3.2.17)
- actionmailer (= 3.2.17)
- actionpack (= 3.2.17)
- activerecord (= 3.2.17)
- activeresource (= 3.2.17)
- activesupport (= 3.2.17)
+ rails (3.2.22.2)
+ actionmailer (= 3.2.22.2)
+ actionpack (= 3.2.22.2)
+ activerecord (= 3.2.22.2)
+ activeresource (= 3.2.22.2)
+ activesupport (= 3.2.22.2)
bundler (~> 1.0)
- railties (= 3.2.17)
- railties (3.2.17)
- actionpack (= 3.2.17)
- activesupport (= 3.2.17)
+ railties (= 3.2.22.2)
+ railties (3.2.22.2)
+ actionpack (= 3.2.22.2)
+ activesupport (= 3.2.22.2)
rack-ssl (~> 1.3.2)
rake (>= 0.8.7)
rdoc (~> 3.4)
thor (>= 0.14.6, < 2.0)
- rake (10.2.2)
+ rake (11.0.1)
rdoc (3.12.2)
json (~> 1.4)
- ref (1.0.5)
- ruby-prof (0.15.2)
- rvm-capistrano (1.5.1)
+ ref (2.0.0)
+ ruby-prof (0.15.9)
+ rvm-capistrano (1.5.6)
capistrano (~> 2.15.4)
- sass (3.3.4)
+ sass (3.4.21)
sass-rails (3.2.6)
railties (~> 3.2.0)
sass (>= 3.1.10)
@@ -196,16 +194,17 @@ GEM
simplecov-html (0.7.1)
simplecov-rcov (0.2.3)
simplecov (>= 0.4.1)
- sprockets (2.2.2)
+ sprockets (2.2.3)
hike (~> 1.2)
multi_json (~> 1.0)
rack (~> 1.0)
tilt (~> 1.1, != 1.3.0)
- sshkey (1.6.1)
- test_after_commit (0.2.3)
+ sshkey (1.8.0)
+ test_after_commit (1.0.0)
+ activerecord (>= 3.2)
themes_for_rails (0.5.1)
rails (>= 3.0.0)
- therubyracer (0.12.1)
+ therubyracer (0.12.2)
libv8 (~> 3.16.14.0)
ref
thor (0.19.1)
@@ -213,13 +212,15 @@ GEM
treetop (1.4.15)
polyglot
polyglot (>= 0.3.1)
- trollop (2.1.1)
- tzinfo (0.3.39)
- uglifier (2.5.0)
+ trollop (2.1.2)
+ tzinfo (0.3.46)
+ uglifier (2.7.2)
execjs (>= 0.3.0)
json (>= 1.8.0)
uuidtools (2.1.5)
- websocket-driver (0.3.2)
+ websocket-driver (0.6.3)
+ websocket-extensions (>= 0.1.0)
+ websocket-extensions (0.1.2)
PLATFORMS
ruby
@@ -229,12 +230,13 @@ DEPENDENCIES
andand
arvados (>= 0.1.20150615153458)
arvados-cli (>= 0.1.20151207150126)
- coffee-rails (~> 3.2.0)
+ coffee-rails (~> 3.2)
database_cleaner
factory_girl_rails
faye-websocket
google-api-client (~> 0.6.3)
jquery-rails
+ minitest (~> 5.0)
mocha
multi_json
oj
@@ -244,10 +246,10 @@ DEPENDENCIES
pg
pg_power
puma
- rails (~> 3.2.0)
+ rails (~> 3.2)
ruby-prof
rvm-capistrano
- sass-rails (>= 3.2.0)
+ sass-rails (>= 3.2)
simplecov (~> 0.7.1)
simplecov-rcov
sshkey
@@ -258,4 +260,4 @@ DEPENDENCIES
uglifier (>= 1.0.3)
BUNDLED WITH
- 1.10.6
+ 1.11.2
-----------------------------------------------------------------------
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