Commits

Author Commit Message Labels Comments Date
jeremy goecks
Trackster: no need to parse floats because data providers now return floats rather than strings.
jeremy goecks
Trackster: in pack mode for feature tracks, show feature details on mouseover. Also: (a) provide general method for rounding numbers; (b) return numerical filter values as floats rather than strings; and (c) pack scripts.
Daniel Blankenberg
Add Secure Hash/Message Digest tool to tool_conf.xml.main.
jen
Other genome description: corrected typo.
Jennifer Jackson
Other genome description: revised all, corrected canonical male
Greg Von Kuster
Miscellaneous enhancements for the tool shed: 1. Enable the same behavior for the config settings named "tool_config_file" and "tool_config_files" since this config setting can now be a comma-separated list of file names. 2. Display an error message if a user attempts to install a Galaxy tool shed repository but they do not have a shed tool config file named in the "tool_config_file" setting in universe_wsgi.ini. 3. If tool search using whoosh is enabled, re-index the tool box when new tools are installed from a tool shed.
Nate Coraor
Make purged histories visible in the history list grid, make any history viewable from the grid.
Dannon Baker
Workflow unique default inputs: Merge in from John Duddy.
John Duddy
Removed duplicate section (merge error)
John Duddy
Allow 2 new optional parameters to workflow/run controller method: history_id: an encoded history id to use. Will not permantently switch user's current id hide_fixed_params: Initially hides all workflow parameters that are not "Set at Runtime" and all workflow steps that only contain them. Intended to reduce clutter when launching "canned" workflows. Also added configurable feature that governs how initial values are selected from the history for workflow runtime input. When enabled, this feature causes Galaxy to use each input only once until it has used them all. This is for the paired-end scenario, to attempt to match inputs correctly by default.
jeremy goecks
Bug fixes: (a) trackster: don't cache tile if undefined and (b) define init_operation_buttons differently to prevent ordering issue. Pack scripts.
jeremy goecks
Grid UI fixes: (a) make operation buttons work after refresh and (b) show message each time.
Nate Coraor
UI enhancements for purging histories and deleted datasets in a history.
Daniel Blankenberg
Add get info/parameter button to empty datasets in history item view.
Daniel Blankenberg
Some genomespace_file_browser tweaks.
Daniel Blankenberg
Add test/development GenomeSpace file importer datasource tool.
Nate Coraor
A much more efficient query for calculating a history's disk usage.
Daniel Blankenberg
Some gatk_wrapper.py tweaks.
Daniel Blankenberg
HTML escape job stderr/stdout/info on dataset error page.
Daniel Blankenberg
Add a link to allow the user to switch to the new history directly after cloning.
jeremy goecks
Trackster: return drawing coordinates for all features. Pack scripts.
Daniel Blankenberg
Fix for .wiki_url in tool_form.mako
Kanwei Li
Cache bust using unix timestamp that server started on to force reloading of stylesheets and javascripts whenever server restarts
Kanwei Li
Typo
Kanwei Li
Standardize {datatypes|tool}_conf.xml.sample with 2 space indentation and newline before <label> blocks
Kanwei Li
Grouping tool: make error clearer when a line doesn't have entry on grouped column
Kanwei Li
Force octet-stream MIME only when downloading datasets to prevent Safari from appending MIME extension
jeremy goecks
Trackster: add feature-position mapper so that a feature's data can be recovered using from screen position. This is the foundation for providing feature data on mouseover and/or click.
jeremy goecks
Fix bug in setting shared visualization's viewport.
Ross Lazarus
Increase size limit for display of html files to 10000000 bytes - mirdeep2 creates very large html objects. Size limit for display should probably be configurable.
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