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2013-08-07Fixed things with the dataset dropdowns and mRNA datasetsZachary Sloan
Improved the templates for a couple pages related to changing user password, etc
2013-07-23Fixed a couple issues with he quick_search_table.py scriptZachary Sloan
Added notes on using percona to optimise mysql to gn_installation_notes.txt Started moving "get_trait_data" to DataSet since it is the same regardless of the particular DataSet subclass (PhenotypeDataSet, MrnaAssayDataSet, etc)
2013-07-18Added Amelie's rat data genotypesZachary Sloan
Got human mapping mostly working Fixed dataset dropdown menus
2013-07-03Updated notes and created requirements.txt fileZachary Sloan
2013-06-21Fixed bug where cursor was still being used in queryZachary Sloan
2013-06-20Removed foobar from top of notes.txtZachary Sloan
2013-06-20Added fubar to the top of notes.txtZachary Sloan
2013-06-20Added explanation of pushing to github to notesZachary Sloan
2013-06-19Merge branch 'flask' of git://github.com/leiyan/GeneNetwork2-Python into flaskZachary Sloan
Conflicts: wqflask/base/data_set.py wqflask/wqflask/views.py Fixed a couple conflicts to merge Lei's code related to the correlation page
2013-06-11Put trait info for correlation results page into a dictionary insteadLei Yan
of storing list of GeneralTrait objects Added print statements to track memory usage
2013-05-08Merge branch 'flask' of git://github.com/leiyan/genenetwork into flaskZachary Sloan
2013-05-08Worked on correlation pageLei Yan
Wrote function in dataset.py that gets all the traits in a dataset and their sample values
2013-04-24Began writing code that writes some objects used in LMM to redisZachary Sloan
and writes/reads eachitem in the plink_input
2013-04-23Created file correlation_plot.py for the correlation scatterplotZachary Sloan
Reverted temp_data.py to previous version that doesn't include the "part" input (for chunks) Made change to lmm related to splitting main iterator into chunks Deleted a bunch of unnecessary commented out code from show_trait.py
2013-04-18LMM code now reads in gzipped pickled plink snp iterator objectZachary Sloan
2013-04-18input file is now loaded by pickleZachary Sloan
2013-03-22Added secure_server.pyZachary Sloan
Updated notes.txt
2013-03-22Removed zach_settings.py from git trackingZachary Sloan
Changed mysql password as a result of it being up on git before
2013-03-13Added some to notesZachary Sloan
2013-03-05Implemented DataTables; there are now options to download the markerZachary Sloan
regression result table in various formats
2013-02-22Added some to notesZachary Sloan
2013-02-21Adding genotypes and new_genotypes (json files) directories to gitZachary Sloan
so they can be pulled to the new EC2 server
2013-01-31Deleted nginx.conf from the other_conf directory not in wqflaskZachary Sloan
2013-01-25Added a bunch of things to notesZachary Sloan
2013-01-24Added a lot to the notes in the process of setting up on theZachary Sloan
new server
2013-01-23Added a bunch to notes and created new notes file specificallyZachary Sloan
related to installing a new instance of GN
2013-01-22Added a couple things to notes regarding installing mysql clientZachary Sloan
2013-01-18Renamed CorrelationPage.py to show_corr_results.pyZachary Sloan
Worked with correlation code; got to the code that begins to do the actual correlations Created a function "get_dataset_and_trait" in the new file "helper_functions.py" because the code initializing the dataset and trait objects was repeated in multiple places
2013-01-11Overwrote requirements.txtZachary Sloan
2013-01-04Correct results are being returned from reaper for the marker regression pageZachary Sloan
2012-12-05Renamed webqtlTrait.py to trait.pyZachary Sloan
Renamed webqtlTrait class to GeneralTrait Began process of removing fd from show_trait.py Created DatasetGroup object in data_set.py (this may end up becoming its own file later if it becomes big enough)
2012-11-21Changed parser to allow for bother square brackets and parenthesesZachary Sloan
Changed show_trait.coffee to get the stats table working again Still need to get stats table to work with changed values
2012-11-01Began integrating do_search.py's DoSearch object into search_results.py,Zachary Sloan
with simple searches returning correct results Still need to make results display in the table Sam also did some work with the bootstrap styling
2012-10-23Finished coffeescript that handles the home page dataset selection dropdownsZachary Sloan
2012-10-19Finished gen_select_dataset.py which generates the json file that defines theZachary Sloan
data structure used for the index page select dropdowns
2012-10-09Used tidyp to improve/beautify index_page.htmlZachary Sloan
2012-09-25Fixed issue with parent strains appearing twice and began replacing variable ↵Zachary Sloan
names (strain -> sample, for example)
2012-09-13Worked on improving readData and informativeStrains functions in ↵Zachary Sloan
webqtlFormData while trying to get correlation page running
2012-09-12Worked towards correctly passing form data to correlation page and addressed ↵Zachary Sloan
various bugs that arose while doing so