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2014-01-30Most of the work is done towards running lmm.py from the command line...and storing the results in redis Zachary Sloan
2014-01-24Added natural sort to sort the index column for the sample data in...the trait page Hid the Quick Search on the index page until it is working well. Started writing a file to run the pyLMM code in the background to avoid memory issues/timing out Zachary Sloan
2013-11-21Added apt-get dist-upgrade to notesZachary Sloan
2013-11-01Made the extra attribute bar chart coloring continue to work...when the user sorts and gave the option to revert to no coloring Zachary Sloan
2013-10-16Added interval_mapping to views.py...Made some more changes to interval_mapping.py Zachary Sloan
2013-09-20Tissue correlation results work for sample r/rho correlation page...and are written to the template Lei Yan
2013-08-21Fixed an issue where correlationFunction was being imported...instead of its updated name correlation_function Zachary Sloan
2013-08-07Fixed things with the dataset dropdowns and mRNA datasets...Improved the templates for a couple pages related to changing user password, etc Zachary Sloan
2013-07-30Just added some print statements to debug an issue with LMM code...Also added some to notes Zachary Sloan
2013-07-23Fixed a couple issues with he quick_search_table.py script...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) Zachary Sloan
2013-07-18Added Amelie's rat data genotypes...Got human mapping mostly working Fixed dataset dropdown menus Zachary Sloan
2013-07-18Merge branch 'master' of https://github.com/zsloan/genenetwork...Conflicts: wqflask/base/webqtlConfigLocal.py wqflask/maintenance/gen_select_dataset.py wqflask/wqflask/static/new/javascript/dataset_menu_structure.json Zachary Sloan
2013-07-18Added to installation notes...Removed webqtlConfigLocal file containing passwords Updated main page dropdown menus (dataset_menu_structure.json) Zachary Sloan
2013-07-17Fixed gen_select_dataset.py...Appended redis installation info to notes Zachary Sloan
2013-07-16Merge branch 'master' of https://github.com/zsloan/genenetwork...Conflicts: misc/gn_installation_notes.txt Zachary Sloan
2013-07-16Wrote code that can get a dataset's type for every single GN...dataset; previously we could not view traits in datasets that were not in the DBType table in the database Zachary Sloan
2013-07-10Updated installation notesroot
2013-07-10Updated gn_installation_notesZachary Sloan
2013-07-09Committing installation notes before editing them moreZachary Sloan
2013-07-03Updated requirements.txtZachary Sloan
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 flask...Conflicts: wqflask/base/data_set.py wqflask/wqflask/views.py Fixed a couple conflicts to merge Lei's code related to the correlation page Zachary Sloan
2013-06-11Put trait info for correlation results page into a dictionary instead...of storing list of GeneralTrait objects Added print statements to track memory usage Lei Yan
2013-05-08Merge branch 'flask' of git://github.com/leiyan/genenetwork into flaskZachary Sloan
2013-05-08Worked on correlation page...Wrote function in dataset.py that gets all the traits in a dataset and their sample values Lei Yan
2013-04-24Began writing code that writes some objects used in LMM to redis...and writes/reads eachitem in the plink_input Zachary Sloan
2013-04-23Created file correlation_plot.py for the correlation scatterplot...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 Zachary Sloan
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.py...Updated notes.txt Zachary Sloan
2013-03-22Removed zach_settings.py from git tracking...Changed mysql password as a result of it being up on git before Zachary Sloan
2013-03-13Added some to notesZachary Sloan
2013-03-05Implemented DataTables; there are now options to download the marker...regression result table in various formats Zachary Sloan
2013-02-22Added some to notesZachary Sloan
2013-02-21Adding genotypes and new_genotypes (json files) directories to git...so they can be pulled to the new EC2 server Zachary Sloan
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 the...new server Zachary Sloan
2013-01-23Added a bunch to notes and created new notes file specifically...related to installing a new instance of GN Zachary Sloan
2013-01-22Added a couple things to notes regarding installing mysql clientZachary Sloan
2013-01-18Renamed CorrelationPage.py to show_corr_results.py...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 Zachary Sloan
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.py...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) Zachary Sloan
2012-12-05Continued to make changes related to getting rid of cursor/db_conn...and using simple sqlalchemy Got Pheno/MrnaAssay dataset searches working again Zachary Sloan
2012-11-30Got searches working for RANGE and MEAN commands...Created a file where renamed variables will be listed for future reference Zachary Sloan
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