[ARVADOS] updated: e76ee382d79d6726dcf6315dbae0e0f5aef09a86
git at public.curoverse.com
git at public.curoverse.com
Tue Feb 25 13:45:13 EST 2014
Summary of changes:
.../app/assets/javascripts/application.js | 2 +-
.../app/assets/stylesheets/application.css.scss | 4 +-
.../app/views/collections/_index_tbody.html.erb | 4 +-
.../app/views/collections/_show_files.html.erb | 2 +-
crunch_scripts/hash | 24 +-
.../install-crunch-dispatch.html.textile.liquid | 8 +-
doc/sdk/python/sdk-python.html.textile.liquid | 4 +-
doc/user/reference/sdk-cli.html.textile.liquid | 4 +-
.../running-external-program.html.textile.liquid | 4 +-
...rial-gatk-variantfiltration.html.textile.liquid | 2 +-
.../tutorial-parallel.html.textile.liquid | 4 +-
docker/README.md | 39 +--
docker/api/passenger.conf | 6 +-
docker/base/Dockerfile | 8 +-
docker/sso/passenger.conf | 6 +-
docker/workbench/passenger.conf | 6 +-
sdk/cli/bin/arv | 4 +-
sdk/cli/bin/arv-ls | 1 +
sdk/cli/bin/arv-mount | 1 +
sdk/cli/bin/arv-normalize | 1 +
sdk/cli/bin/crunch-job | 26 ++-
sdk/python/arvados/__init__.py | 13 +-
sdk/python/arvados/collection.py | 90 +++++-
sdk/python/arvados/fuse.py | 318 +++++++++++++++++++
sdk/python/arvados/keep.py | 140 +++++++--
sdk/python/arvados/stream.py | 326 +++++++++++--------
sdk/python/arvados/timer.py | 16 +
sdk/python/bin/arv-ls | 33 ++
sdk/python/bin/arv-mount | 194 +++---------
sdk/python/bin/arv-normalize | 24 ++
sdk/python/bin/arv-put | 16 +
sdk/python/readme.llfuse | 1 +
sdk/python/requirements.txt | 2 +-
sdk/python/setup.py.src | 3 +-
sdk/python/test_collections.py | 334 ++++++++++++++++++--
sdk/python/test_mount.py | 153 +++++++++
sdk/python/testdata/1000G_ref_manifest | 1 +
sdk/python/testdata/jlake_manifest | 20 ++
services/api/app/models/collection.rb | 27 ++-
services/api/script/crunch-dispatch.rb | 26 ++-
40 files changed, 1465 insertions(+), 432 deletions(-)
create mode 120000 sdk/cli/bin/arv-ls
create mode 120000 sdk/cli/bin/arv-mount
create mode 120000 sdk/cli/bin/arv-normalize
create mode 100644 sdk/python/arvados/fuse.py
create mode 100644 sdk/python/arvados/timer.py
create mode 100755 sdk/python/bin/arv-ls
create mode 100755 sdk/python/bin/arv-normalize
create mode 100644 sdk/python/readme.llfuse
create mode 100644 sdk/python/test_mount.py
create mode 100644 sdk/python/testdata/1000G_ref_manifest
create mode 100644 sdk/python/testdata/jlake_manifest
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commit e76ee382d79d6726dcf6315dbae0e0f5aef09a86
Author: Tom Clegg <tom at curoverse.com>
Date: Tue Feb 25 10:44:46 2014 -0800
Fix spacing of tag labels.
diff --git a/apps/workbench/app/assets/javascripts/application.js b/apps/workbench/app/assets/javascripts/application.js
index 770a904..3b697a6 100644
--- a/apps/workbench/app/assets/javascripts/application.js
+++ b/apps/workbench/app/assets/javascripts/application.js
@@ -83,7 +83,7 @@ jQuery(function($){
parent().
find('>span').
append(new_tag_span).
- append(' ');
+ append(' ');
$.ajax($(this).attr('data-remote-href'),
{dataType: 'json',
type: $(this).attr('data-remote-method'),
diff --git a/apps/workbench/app/assets/stylesheets/application.css.scss b/apps/workbench/app/assets/stylesheets/application.css.scss
index 7d241ad..2c361f9 100644
--- a/apps/workbench/app/assets/stylesheets/application.css.scss
+++ b/apps/workbench/app/assets/stylesheets/application.css.scss
@@ -136,8 +136,8 @@ td.add-tag-button .add-tag-button {
td.add-tag-button .add-tag-button:hover {
opacity: 1;
}
-.label.removable-tag {
- margin-top: .2em;
+span.removable-tag-container {
+ line-height: 1.6;
}
.label.removable-tag a {
color: #fff;
diff --git a/apps/workbench/app/views/collections/_index_tbody.html.erb b/apps/workbench/app/views/collections/_index_tbody.html.erb
index 258b00b..eb9c93f 100644
--- a/apps/workbench/app/views/collections/_index_tbody.html.erb
+++ b/apps/workbench/app/views/collections/_index_tbody.html.erb
@@ -31,14 +31,14 @@
</td>
<td class="add-tag-button">
<a class="btn btn-xs btn-info add-tag-button pull-right" data-remote-href="<%= url_for(controller: 'links', action: 'create') %>" data-remote-method="post"><i class="glyphicon glyphicon-plus"></i> Add</a>
- <span>
+ <span class="removable-tag-container">
<% if @collection_info[c.uuid] %>
<% @collection_info[c.uuid][:tag_links].each do |tag_link| %>
<span class="label label-info removable-tag" data-tag-link-uuid="<%= tag_link.uuid %>"><%= tag_link.name %>
<% if tag_link.owner_uuid == current_user.uuid %>
<a title="Delete tag"><i class="glyphicon glyphicon-trash"></i></a>
<% end %>
- </span>
+ </span>
<% end %>
<% end %>
</span>
commit b8ee617ec8af73120b427f7591744d0f4883a63f
Merge: 00af5ad e8f224e
Author: Tom Clegg <tom at curoverse.com>
Date: Tue Feb 25 09:22:43 2014 -0800
Merge branch 'master' into 2060-edit-tags-in-workbench
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