| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2016-09-25 | Merge branch 'master' into chfi | Pjotr Prins | |
| 2016-09-25 | Testing: looking for a way to run pylmm | Pjotr Prins | |
| 2016-09-25 | I was getting below error with the small database. This commit, at least, does | Pjotr Prins | |
| not assume the item exists. ERROR:wqflask:Exception on /marker_regression [POST] Traceback (most recent call last): File "/home/wrk/.guix-profile/lib/python2.7/site-packages/Flask-0.10.1-py2.7.egg/flask/app.py", line 1817, in wsgi_app response = self.full_dispatch_request() File "/home/wrk/.guix-profile/lib/python2.7/site-packages/Flask-0.10.1-py2.7.egg/flask/app.py", line 1477, in full_dispatch_request rv = self.handle_user_exception(e) File "/home/wrk/.guix-profile/lib/python2.7/site-packages/Flask-0.10.1-py2.7.egg/flask/app.py", line 1381, in handle_user_exception reraise(exc_type, exc_value, tb) File "/home/wrk/.guix-profile/lib/python2.7/site-packages/Flask-0.10.1-py2.7.egg/flask/app.py", line 1475, in full_dispatch_request rv = self.dispatch_request() File "/home/wrk/.guix-profile/lib/python2.7/site-packages/Flask-0.10.1-py2.7.egg/flask/app.py", line 1461, in dispatch_request return self.view_functions[rule.endpoint](**req.view_args) File "/export2/izip/git/opensource/genenetwork/sumo_gn2/wqflask/wqflask/views.py", line 460, in marker_regression_page template_vars = marker_regression.MarkerRegression(start_vars, temp_uuid) File "/export2/izip/git/opensource/genenetwork/sumo_gn2/wqflask/wqflask/marker_regression/marker_regression.py", line 74, in __init__ value = start_vars['value:' + sample] KeyError: 'value:BXD80' | |||
| 2016-09-25 | tools: export GENENETWORK_FILES and move cache into TMPDIR/gn2 | Pjotr Prins | |
| 2016-09-25 | Doc: Section on reproducibility | Pjotr Prins | |
| - fixed SVG URLs | |||
| 2016-09-16 | Refetch SNP density on zoom | christian | |
| 2016-09-13 | Save Image now works for Network Graph and downloads current graph as a png | zsloan | |
| 2016-09-13 | Fixed the path for the json file in gen_select_dataset.py since it was wrong ↵ | zsloan | |
| and uncommented simplejson import Added "Reset" option to network graph that returns all the nodes/edges Made the visualization options area in the network graph a little wider | |||
| 2016-09-13 | Merge pull request #181 from pjotrp/zsloan | zsloan | |
| Run scripts from ./wqflask - just like the webserver | |||
| 2016-09-13 | Run scripts from ./wqflask - just like the webserver | Pjotr Prins | |
| 2016-09-12 | Merge pull request #180 from pjotrp/zsloan | zsloan | |
| Support maintenance scripts | |||
| 2016-09-10 | Comment | Pjotr Prins | |
| 2016-09-10 | Support for running maintenance scripts so they can pick up all webserver ↵ | Pjotr Prins | |
| settings Run with ./bin/genenetwork2 ~/my_settings.py -c ./wqflask/maintenance/gen_select_dataset.py | |||
| 2016-09-10 | Merge branch 'development' of github.com:genenetwork/genenetwork2 into zsloan | Pjotr Prins | |
| 2016-09-10 | Doc: Rpy2 note | Pjotr Prins | |
| 2016-09-09 | Added a couple options for network graph - Focus Trait, Layout, and a ↵ | zsloan | |
| correlation slider. The first only displays the edges for the specified trait/node, the second changes layout, and the third hides nodes/edges with abs(correlation) less than the slider's value Changed/added a couple node/edge attributes for network graph Updated dataset menu structure json file to include the human RETINA data set Added css file for network graph page (specifically to make the appearance of the options resemble the RETINA website's) | |||
| 2016-09-09 | Merge branch 'master' of github.com:genenetwork/genenetwork2 | Pjotr Prins | |
| 2016-09-09 | Doc: note on guix paths | Pjotr Prins | |
| 2016-09-08 | Fix genotype & QTL plot vertical scaling | christian | |
| 2016-09-02 | Added Network Graph feature that uses cytoscape.js. Currently you can view ↵ | zsloan | |
| GN2 and third party links when clicking a node, view scatterplot when clicking an edge, and edges appearance varies based upon correlation Fixed issue that caused error with correlation page | |||
| 2016-08-26 | Fixed appearance (border width mostly) of basic stats table on trait page | zsloan | |
| Removed unnecessary datatables javascript code that referred to basic stats table | |||
| 2016-08-24 | Fixed issue causing bootstrap results to not plot correctly. | zsloan | |
| 2016-08-24 | Replaced post-publication description with pre-publication description for ↵ | zsloan | |
| confidential phenotype traits in search results and trait pages Fixed table style for mapping results and interval analyst tables and added additive/dominance effect columns to the former Fixed mapping figure X-axis to accurately label Centimorgans vs Megabases (previously it would always say Megabases) Removed the "Sequence Site" marker from mapping result figure when mapping with genetics (centimorgans) scale Removed some unused javascript libary imports from search/global search pages | |||
| 2016-08-19 | Merge branch 'biodalliance' of github.com:chfi/genenetwork2 into chfi | Pjotr Prins | |
| 2016-08-17 | Updated dataTables from 1.10.8 to 1.10.12 on search result page | zsloan | |
| 2016-08-17 | Fixed problem where Year column didn't sort properly in phenotype search and ↵ | zsloan | |
| global search results | |||
| 2016-08-17 | Hide "close BD" button when returning to full view | christian | |
| 2016-08-17 | Merge branch 'staging' into chfi | Pjotr Prins | |
| 2016-08-17 | Merge branch 'gn_server' into chfi | Pjotr Prins | |
| 2016-08-17 | Use this.url | Pjotr Prins | |
| 2016-08-17 | Fix SNP stylesheet to fit new bin size | christian | |
| 2016-08-16 | Users can now select specific traits from collection when using collection ↵ | zsloan | |
| tools (correlation matrix, wgcna, etc) To do the above, changed the way form submission worked for those features; previously each feature had its own form, but that was dumb so instead I wrote a javascript function that just changed a single form's target url Duplicate traits can no longer by added to collections Fixed the digits for a few table columns in collection (additive effect, etc). | |||
| 2016-08-16 | Add SNP density track to BD browser | christian | |
| 2016-08-15 | Removed text recommending winsoring when mapping since that feature isn't ↵ | zsloan | |
| implemented yet Added padding to header text of Basic Statistics table | |||
| 2016-08-15 | Fix genotype source, interval mapping issue | christian | |
| 2016-08-14 | Check routing paths: notice use of this.url | Pjotr Prins | |
| 2016-08-14 | Default settings | Pjotr Prins | |
| 2016-08-12 | Changed pop-up asking to import collections to less obtrusive checkbox | zsloan | |
| Decreased collections/list table width | |||
| 2016-08-12 | Add genotype track | christian | |
| 2016-08-12 | Increase height of BD | christian | |
| 2016-08-11 | Added prompt when user logs in that lets them choose to import existing ↵ | zsloan | |
| anonymous collections as user collections | |||
| 2016-08-10 | Rewrite BD sources; use computed QTL data in BD | christian | |
| 2016-08-10 | Serve QTL data as CSV | christian | |
| 2016-08-09 | Use JSON served as file for marker_regression data | christian | |
| 2016-08-09 | Serve marker_regressions data as JSON file | christian | |
| 2016-08-09 | Use correct webworker prefix for BD | christian | |
| 2016-08-08 | Fixed bug where Interval Analyst result wouldn't appear for chromosome X in ↵ | zsloan | |
| mice/rats Fixed broken image link in Interval Analyst table for rats Small change to column width of gene global search | |||
| 2016-08-08 | JS: check whether download paths exist | Pjotr Prins | |
| 2016-08-08 | Merge branch 'biodalliance' of github.com:chfi/genenetwork2 into gn_server | Pjotr Prins | |
| 2016-08-08 | BD: reverted on build in path so CSS is seen again | Pjotr Prins | |
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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