guerler
339ad57f3f
Cleanup Masthead and Scratchbook
...
Cleanup Masthead and Scratchbook
2015-12-30 16:31:59 -05:00
Bjoern Gruening
1873d2c5ed
update js scripts
2015-12-25 18:56:55 +01:00
guerler
17d733b042
Move closing events to show/hide function
2015-12-19 17:20:02 -05:00
guerler
39e7f025eb
Refine popover wrapper
...
Revise popover, add tests
2015-12-19 17:08:51 -05:00
guerler
048561d282
Avoid duplicate upload entries, revise modals, add tests
...
Revise styles
Add more tests
2015-12-19 17:08:49 -05:00
Dannon Baker
04f5ed4552
Reimplement menu onclick functionality that appears to have been dropped (probably a bad merge?) in the webpack PR.
2015-12-17 19:35:17 -05:00
guerler
2ff3bf0c0c
Fix label change handling
2015-12-16 17:12:37 -05:00
guerler
12014cc225
Show correct subworkflow name
2015-12-16 17:12:23 -05:00
guerler
b4bfde4089
Fix attribute
2015-12-16 15:24:02 +00:00
guerler
f10b968075
Build section dom in js
2015-12-16 15:22:25 +00:00
guerler
f88ad8d4e3
Fix Change type label in editor form
2015-12-16 15:22:18 +00:00
John Chilton
157939aa8f
Implement nested workflows.
...
Details:
- Add a new workflow module describing subworkflows.
- Add workflow list to editor side panel - with options to link in a subworkflow module or copy the target workflow into the workflow being editted node for node.
- Update workflow, workflow step, and workflow invocation models to track subworkflow connections and execution.
- Extend workflow outputs with concepts of labels (and UUIDs while I'm there) to match workflow inputs. This allow us to have something to label outputs with in the workflow editor and to reference in the format 2 workflow description language.
- Extend workflow editor UI to allow labeling workflow outputs (and enforce that these are unique across a workflow).
- Extend workflow invocation and progress tracking to allow invoking a subworkflow as part of another workflow invocation.
- Extend workflow import and export code to allow a nested representation of workflows.
- Update format 2 workflow description to allow testing nested workflows.
Most relevant new and modified test cases can be run using the following commands:
```
./run_tests.sh -api test/api/test_workflows.py:WorkflowsApiTestCase.test_run_subworkflow_simple
./run_tests.sh -api test/api/test_workflows_from_yaml.py:WorkflowsFromYamlApiTestCase.test_subworkflow_simple
./run_tests.sh -api test/api/test_workflows_from_yaml.py:WorkflowsFromYamlApiTestCase.test_outputs
nosetests test/unit/test_galaxy_mapping.py
nosetests test/unit/workflows/test_workflow_progress.py
```
2015-12-16 15:22:18 +00:00
Dannon Baker
cf5d209e0f
Manual merge of #1303 to resolve build artifact conflicts.
2015-12-16 06:51:12 -05:00
John Chilton
7f7010dbd9
Remove left over packed scripts.
...
The source files have been deleted.
2015-12-14 19:38:06 +00:00
carlfeberhard
2acdbe54f7
UI, Citations: fix citation-model's import of bibtex to use *either* commonjs or global
2015-12-14 17:22:58 -05:00
guerler
3108ba5c01
Ensure that text fields only display text
2015-12-14 13:29:01 -05:00
guerler
42edfca679
Repack, refix section validation
2015-12-14 11:24:25 -05:00
guerler
c61a5529b4
Merge branch 'dev' of git://github.com/galaxyproject/galaxy into run_workflow_form_004
2015-12-14 10:37:45 -05:00
carlfeberhard
c1ce8ef0ce
UI, list of pairs collection creator: improve auto-pair error message to be more beginner friendly(?)
2015-12-14 09:20:10 -05:00
carlfeberhard
f14b38124b
UI, list of pairs collection creator: prevent vice-versa pair duplication by removing paired dataset from both temp lists during auto pairing
2015-12-14 08:59:24 -05:00
carlfeberhard
84f3b72e1a
(merge dev); Testing, histories: update tests to reflect allowing anon to create/copy histories via the API
2015-12-11 13:44:48 -05:00
carlfeberhard
32be886f0f
API, Histories: allow api/histories/create to be used as anon user; UI, Histories: minor fixes
2015-12-11 10:30:39 -05:00
carlfeberhard
9e512f5246
UI, History: use copy dialog in the embedded histories in Pages, add autoClose option to copy dialog
2015-12-11 08:44:45 -05:00
guerler
952f3f9b7a
Open select2 dropdown on click
2015-12-11 03:10:17 -05:00
carlfeberhard
d72b913c1d
UI, History: hack multiple copy by API into the 'histories shared with me' mako grid
2015-12-10 16:25:52 -05:00
carlfeberhard
1ebc0ea9e7
UI, Quotameter: correctly update the quotameter for anon users
2015-12-10 14:15:33 -05:00
carlfeberhard
cb23e010d7
UI, History: use copy dialog in history/view for import, minor fixes
2015-12-10 13:52:43 -05:00
guerler
9a4c834370
Use fa icons for drill down expansion
2015-12-10 13:01:35 -05:00
carlfeberhard
09cb673a9b
UI, History: use copy dialog for shared history popupmenus, use custom templates for both saved and shared history lists/grids. refactor custom grid code for insertion of copy dialog
2015-12-10 12:59:19 -05:00
guerler
636e9900ba
Improve handling of unspecified workflow editor values
2015-12-10 10:57:29 -05:00
carlfeberhard
253ca7ec49
UI, History: insert/use copy dialog in the 'Saved Histories' grid
2015-12-10 10:52:48 -05:00
carlfeberhard
941109dda8
UI, History: use copy dialog as import dialog in published history pages, refactor copy-dialog
2015-12-09 19:29:59 -05:00
carlfeberhard
d72dd3735c
Client, polyfills: check for sessionStorage using a more cross-browser (apparently) way
2015-12-09 14:10:36 -05:00
carlfeberhard
e391fa4975
UI, History: allow copy dialog to have default of copy-all-datasets passed in as option; Replace import link with copy dialog in published histories
2015-12-09 11:44:51 -05:00
carlfeberhard
78427438ad
UI, History: refactor the history copy dialog, use it from the options menu (instead of history/copy), pass ui-modal closing_callback a flag whether it was a cancellation or not
2015-12-09 11:07:07 -05:00
guerler
2b63427e96
Handle late validated dataset references
2015-12-08 16:39:21 -05:00
Martin Cech
fe1c9dd293
Merge pull request #1251 from jmchilton/workflow_labels_2
...
Workflow Editor UI for Step Labels
2015-12-08 12:04:26 -05:00
carlfeberhard
6ba86d89bc
UI, Citations: don't create new BibtexParser, remove debugging
2015-12-08 10:57:41 -05:00
carlfeberhard
5ff09896f7
UI, Citations: fix require of bibtex parser
2015-12-08 10:27:09 -05:00
John Chilton
3f8950628c
Workflow label UI refinement.
...
- Escape workflow labels in mako.
- Handle unlabelling steps properly (restore original node name to node and editor form titles).
2015-12-08 09:22:11 +00:00
guerler
485e8ef8f2
Add fallback for missing section and repeat title
2015-12-07 16:06:37 -05:00
Martin Cech
ef0b6cc459
show notifications as Toasts and not like JS alerts (bleh)
2015-12-07 15:07:14 -05:00
guerler
8c6d530a66
Merge branch 'dev' of git://github.com/galaxyproject/galaxy into run_workflow_form_004
2015-12-07 00:50:30 -05:00
John Chilton
3a023f4cae
Merge pull request #818 from mvdbeek/cross_toolshed_tool_fetching
...
Look up installed tools from different toolshed(s)
2015-12-06 15:56:31 -05:00
guerler
a951d34c70
Merge branch 'dev' of git://github.com/galaxyproject/galaxy into run_workflow_form_004
2015-12-06 14:09:20 -05:00
carlfeberhard
b55635f71b
Client, upload: fix passing of nginx_upload_path and ftp_upload_site to upload-view, fix default nginx_upload_path in configuration serializer
2015-12-06 12:10:31 -05:00
guerler
ab651fa89c
Fix url, lint and packing
...
Catch missing history, fix failing api test
2015-12-06 10:48:40 -05:00
John Chilton
e3161b4671
Add support for workflow step labels in editor.
...
- If a step has a label, display it in the step editor side panel title.
- Allow clicking the title to change the label.
- Display the label (if set) as the workflow node box title.
- Add icon to workflow node since the title might not be related to type anymore.
- Enforce unique labels accross the workflow in the editor.
- Qunit test cases for some of this behavior and other recent changes.
2015-12-06 12:27:13 +00:00
guerler
6820b29d3b
Merge branch 'dev' of git://github.com/galaxyproject/galaxy into run_workflow_form_004
2015-12-05 22:42:31 -05:00
guerler
e29f7155c4
Remove files
2015-12-05 22:40:54 -05:00
guerler