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2016-09-10Support 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
2016-09-10Merge branch 'development' of github.com:genenetwork/genenetwork2 into zsloanPjotr Prins
2016-09-10Doc: Rpy2 notePjotr Prins
2016-09-09Added 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)
2016-09-09Merge branch 'master' of github.com:genenetwork/genenetwork2Pjotr Prins
2016-09-09Doc: note on guix pathsPjotr Prins
2016-09-08Fix genotype & QTL plot vertical scalingchristian
2016-09-02Added 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
2016-08-26Fixed appearance (border width mostly) of basic stats table on trait pagezsloan
Removed unnecessary datatables javascript code that referred to basic stats table
2016-08-24Fixed issue causing bootstrap results to not plot correctly.zsloan
2016-08-24Replaced 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
2016-08-19Merge branch 'biodalliance' of github.com:chfi/genenetwork2 into chfiPjotr Prins
2016-08-17Updated dataTables from 1.10.8 to 1.10.12 on search result pagezsloan
2016-08-17Fixed problem where Year column didn't sort properly in phenotype search and ↵zsloan
global search results
2016-08-17Hide "close BD" button when returning to full viewchristian
2016-08-17Merge branch 'staging' into chfiPjotr Prins
2016-08-17Merge branch 'gn_server' into chfiPjotr Prins
2016-08-17Use this.urlPjotr Prins
2016-08-17Fix SNP stylesheet to fit new bin sizechristian
2016-08-16Users 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).
2016-08-16Add SNP density track to BD browserchristian
2016-08-15Removed text recommending winsoring when mapping since that feature isn't ↵zsloan
implemented yet Added padding to header text of Basic Statistics table
2016-08-15Fix genotype source, interval mapping issuechristian
2016-08-14Check routing paths: notice use of this.urlPjotr Prins
2016-08-14Default settingsPjotr Prins
2016-08-12Changed pop-up asking to import collections to less obtrusive checkboxzsloan
Decreased collections/list table width
2016-08-12Add genotype trackchristian
2016-08-12Increase height of BDchristian
2016-08-11Added prompt when user logs in that lets them choose to import existing ↵zsloan
anonymous collections as user collections
2016-08-10Rewrite BD sources; use computed QTL data in BDchristian
2016-08-10Serve QTL data as CSVchristian
2016-08-09Use JSON served as file for marker_regression datachristian
2016-08-09Serve marker_regressions data as JSON filechristian
2016-08-09Use correct webworker prefix for BDchristian
2016-08-08Fixed 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
2016-08-08JS: check whether download paths existPjotr Prins
2016-08-08Merge branch 'biodalliance' of github.com:chfi/genenetwork2 into gn_serverPjotr Prins
2016-08-08BD: reverted on build in path so CSS is seen againPjotr Prins
2016-08-08Refactor BD-related code into a modulechristian
2016-08-08Fix BD route in marker regression pagechristian
2016-08-08Add styling to BD buttonschristian
2016-08-08BD: Using localhostPjotr Prins
2016-08-08maintenance module reinstated (for now)Pjotr Prins
2016-08-08Merge branch 'biodalliance' of github.com:chfi/genenetwork2 into chfiPjotr Prins
2016-08-08Merge branch 'master' of github.com:chfi/genenetwork2 into chfiPjotr Prins
2016-08-08Doc: gn_execPjotr Prins
2016-08-05Fixed issue that caused some interval mapping results to be wrong; the cause ↵zsloan
seems to be related to some strains being renamed in the genofiles Added a message to the Add to Collection page warning users that anonymous collections will only be stored for 5 days Updated genofiles
2016-08-05Hide BD buttons by default, send species to BDchristian
2016-08-05Add show & hide BD buttons to single chr viewchristian
2016-08-05Add functions for creating, configuring BD browserchristian
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