Martin Cech
5eadd4842d
Merge branch 'release_17.05' into dev
2017-05-16 15:55:16 -04:00
Eric Rasche
5e880815ad
Use galaxy.root by default
2017-05-14 16:02:09 +00:00
Dannon Baker
197e90c662
Replace second line (was the jpg) in upload to demonstrate multiple upload.
2017-05-12 10:56:06 -04:00
Dannon Baker
c789c53f0c
Fix minor typo in history tour
2017-05-12 10:08:33 -04:00
Dannon Baker
a2fd8ac035
Remove GalaxyLogo upload from history intro tour
2017-05-12 10:06:40 -04:00
Nate Coraor
4b3a361a88
Update Jupyter image to 17.05
2017-05-02 12:07:10 -04:00
John Chilton
6201c61d72
Add a note about use_volumes to Jupyter and RStudio GIEs.
2017-05-01 12:38:05 -04:00
John Chilton
9bc24aeef0
Update rstudio to match additional hid handling of Jupyter.
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Ping @erasche - does this work? I'm not sure how rstudio handles the existing DATASET_HID.
2017-04-28 12:14:45 -04:00
John Chilton
5a6e53f728
Rework Jupyter IE for additional_ids handling.
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- Add a new option ``use_volumes`` to the Docker config.
- If using volumes, do nothing differently.
- If not using volumes, set ADDITIONAL_IDS in the environment for the IE itself to fetch (requires https://github.com/bgruening/docker-jupyter-notebook/pull/17 ).
2017-04-28 12:11:10 -04:00
Eric Rasche
60a05c1811
more touch-ups and easier vimdiffing with jupyter configs
2017-04-25 21:59:30 +00:00
Eric Rasche
b1c6d3363d
remove old versions
2017-04-25 21:13:33 +00:00
Eric Rasche
80324d08a5
17.01 version of rstudio
2017-04-25 21:05:51 +00:00
Nicola Soranzo
feb31685f6
Do not click on the section name, it is already expanded
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Introduced in commit ca36c0dbfd
2017-04-25 15:25:22 +01:00
Nicola Soranzo
898f22c75d
More fixes for History Intro tour
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- Remove unnecessary quotes that end up in the pop-up
- Fix one pop-up title
- Remove one step that is broken if the user is already logged-in
2017-04-25 12:25:38 +01:00
Nicola Soranzo
ade550f952
Fix some selectors in tours
2017-04-25 12:25:38 +01:00
Nate Coraor
a2b8b43179
Generate proper url for readiness endpoint
2017-04-17 16:50:52 -04:00
Nate Coraor
abe6434916
Update ethercalc GIE for readiness checking
2017-04-17 16:49:21 -04:00
anuprulez
95fd21230b
Adding bug fix for SIF files
2017-04-06 23:13:14 +02:00
anuprulez
fa086edf22
Adding support for .nhx files (Newick) and removing txt files support
2017-03-31 11:39:19 +02:00
anuprulez
2f66d4563e
Adding shapes for leaves of phylogenetic tree
2017-03-28 22:49:15 +02:00
anuprulez
8e1d761bec
Merging with dev
2017-03-28 17:22:44 +02:00
anuprulez
876c7a2d3d
Adding more features like colors, collapse, prune and resize of the tree
2017-03-28 17:18:04 +02:00
John Chilton
07be669ed0
Merge pull request #3825 from blankenberg/ethercalc
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Fix for EtherCalc IE image specification.
2017-03-28 09:33:43 -04:00
anuprulez
2839153eb4
Adding Phylocanvas visualization for the Galaxy charts
2017-03-28 15:14:22 +02:00
anuprulez
7964c7d1d0
Adding styles for selected nodes and updating default colors for nodes, edges and higlighted elements
2017-03-28 00:13:50 +02:00
anuprulez
90c5345708
Fixing an issue with JSON data 'elements' attribute
2017-03-27 22:49:47 +02:00
Daniel Blankenberg
21e5731355
Fix for EtherCalc IE image specification.
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Will allow EtherCalc to work in 17.05.
2017-03-27 11:58:59 -04:00
anuprulez
f1206a8e35
Updating library files
2017-03-27 16:37:53 +02:00
anuprulez
04941d0aea
Fixing review comments- removing sliders for colors and zoom and adding color pickers, updating values for min and max zoom and replacing logo of the plugin
2017-03-27 16:33:07 +02:00
anuprulez
086dfd71ca
Removing tabs and updating time out for path animation
2017-03-26 19:29:02 +02:00
anuprulez
50a51575f1
Merging with dev
2017-03-26 13:33:41 +02:00
anuprulez
50417de1b4
Adding A* search algorithm for finding shortest distance between root and destination
2017-03-24 18:50:35 +01:00
Eric Rasche
18a26c5f37
Merge pull request #3699 from shiltemann/ethercalc
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Ethercalc Interactive Environment
2017-03-24 06:14:52 +00:00
John Chilton
5428d39adb
Merge pull request #3753 from blankclemens/webhook_tool_list
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Webhook plugin: tool_list
2017-03-20 20:26:43 -04:00
anuprulez
cbc7dd17fc
Removing unused if else
2017-03-20 16:16:06 +01:00
anuprulez
0d95b4e207
Adding graph traversal types
2017-03-20 16:12:14 +01:00
anuprulez
c658ef3c7e
Adding Kruskal algorithm for graphs and color choosing scheme for highlighted edges
2017-03-19 14:50:18 +01:00
anuprulez
a2affcc618
Adding Depth First Search for cytoscape graphs
2017-03-17 18:10:57 +01:00
anuprulez
9f42821f57
Adding Breadth First Search for cytoscape graphs. Tapping any node plays BFS
2017-03-16 23:34:01 +01:00
anuprulez
2a6391550b
Adding directed/undirected attribute for graphs
2017-03-15 22:30:34 +01:00
anuprulez
c6bd499d00
Adding node text and colors for graphs
2017-03-15 17:54:39 +01:00
anuprulez
56338972b9
Extending the sif to json converter to allow single nodes to be plotted
2017-03-15 17:34:51 +01:00
Clemens BlanK
bc203d022f
Speed up list creation.
2017-03-15 10:11:53 +00:00
Clemens BlanK
d7cf8a4b33
Fix Python 2.7 linting.
2017-03-15 09:04:21 +00:00
Clemens BlanK
6ece9acfde
Fix linting.
2017-03-14 21:55:22 +00:00
Clemens BlanK
90ae42c3f1
Reduced API calls to speed it up.
2017-03-14 17:04:48 +00:00
Clemens BlanK
1578ffe1ca
Add tool_list webhook plugin to create the tool list yaml file for this instance.
2017-03-14 16:33:45 +00:00
Nate Coraor
08f66a924b
GIE container waiting and swarm management.
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1. Create a new API endpoint and client spin to wait for GIE containers to
become ready. IEs are not required to use it, but usage does require
a slight change to their `load_notebook()` functions.
2. Add a Docker swarm manager daemon that runs automatically
to add nodes when services are waiting, clean up exited services, and
remove idle nodes. Shuts down automatically when there's nothing to
do.
The format of the GIE proxy session database has changed, if GIEs are
running when you restart Galaxy, they will be interrupted. If you run
the GIE proxy separate from Galaxy, you should restart it after
upgrading.
2017-03-13 21:31:55 -04:00
anuprulez
2275d098ee
Adding graph resize property for window resize
2017-03-10 20:27:38 +01:00
anuprulez
b437be2c56
Adding SIF to JSON converter for Cytoscape viewer
2017-03-10 13:01:54 +01:00
Martin Cech