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2013-06-12Fixed a couple issues with the template that caused the...regular search results and show trait page to not display Zachary Sloan
2013-05-31Fixed the location column for the quick search page...Began writing some jquery to automatically open the first tab within each species tab on the quick search page (not done yet) Zachary Sloan
2013-05-21Added caching to the search page (for both regular and quick searckes)Zachary Sloan
2013-05-17Did a little work with quick search pageZachary Sloan
2013-05-16Made the first level of quick search tabs species, followed by...trait type (was the opposite before Rob commented on it earlier today) Zachary Sloan
2013-05-09Just added some print statements so I can show matrix/vector...shapes to Tony Zachary Sloan
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
2013-05-07Made some progress adding species/group tabs to the quick search result page to...make the results easier to navigate Zachary Sloan
2013-05-02Got quick search code running (but not displaying properly)...Code that processes subset of snps works, in process of putting into a class Zachary Sloan
2013-04-30Merge branch 'flask' of git://github.com/leiyan/genenetwork into flaskZachary Sloan
2013-04-30Changed path to log file...Added server port to configuration file Lei Yan
2013-04-30Did a little with correlation_plot.pyZachary Sloan
2013-04-26Added file that checks how much time is added to a loop's runtime by print st......Continued work on file that processes each individual chunk of the snp iterator/plink input Zachary Sloan
2013-04-24Began writing code that writes some objects used in LMM to redis...and writes/reads eachitem in the plink_input Zachary Sloan
2013-04-24Added original pylintrcZachary Sloan
2013-04-24Checking in quick_search_table.py before using pylinZachary Sloan
2013-04-24Fixed issue with the part of quick_search_table.py that loads phenotype traitsZachary 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
2013-04-19Fixed the issue with the x-axis coordinates for marker regression plotZachary Sloan
2013-04-18The plink_input is split into chunks that are stored in temp_data, but...we might decide to store it differently 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
2013-04-17Created file with pickled SNPIterator (from input.py) data...for HLC datasets Still need to read in file Zachary Sloan
2013-04-17Added a benchmark for running the chunks code on the list of snpsZachary Sloan
2013-04-17Renamed chunk_test.py to chunks.pyZachary Sloan
2013-04-17Updated chunk_test.pyZachary Sloan
2013-04-17Added chunk_test.py which compared my/ and sam's split into...chunks algorithms' accuracy/speed Zachary Sloan
2013-04-17Wrote code that tests the effectiveness of the function that divides a...list into a given number of chunks Zachary Sloan
2013-04-17Fixed small issue with the divide_into_chunks function...that caused one too many chunks to be created Zachary Sloan
2013-04-16Wrote functions that divide a list into a specified number of chunks...(to be used on the list of snps for the LMM code) Zachary Sloan
2013-04-16Checking in before making some changesZachary Sloan
2013-04-16Put most of the code calculating human association statistics in...lmm.py into a separate function Zachary Sloan
2013-04-11Fixed a bug with quick_search_table.py...Edited generate_probesetfreeze_file.py to try running it on the dataset with incorrect regression lines Zachary Sloan
2013-04-10Created template for quick search page...Fixed a couple bugs with quick_search_table.py Zachary Sloan
2013-04-09Have quick search working for phenotypesZachary Sloan
2013-04-09Nick's code works fine with human data...Added option to limit results based on lod score (which also changes the y-axis of the plot) Zachary Sloan
2013-04-05Loading bar now correctly shows the time to completion...and the code seems to run correctly Zachary Sloan
2013-04-05Made change to nginx config file that seems to have fixed the...504 gateway timeout issue with the human datasets Zachary Sloan
2013-04-05Got Nick's code working with the MDP datasets under the BXD group,...but with only BXD strains Zachary Sloan
2013-04-05Made changes to get pylmm code working with HMDP datasetsZachary Sloan
2013-04-02Finished adding code that uses the plink genotype data if...a human dataset and json data if any other species Zachary Sloan
2013-04-02Committing before splitting code that runs pylmm with plink files...and code that runs it with json Zachary Sloan
2013-04-02pylmm code is running for human data (plink .bed genotype files)Zachary Sloan
2013-03-28quick_search_table.py seems to be running OK for the PublishXRef...table, but will need to check later to make sure Zachary Sloan
2013-03-28quick_search_table.py now seems to run correctly for ProbeSetXRef...rows Zachary Sloan
2013-03-28Committing before putting quick_search_table code in classesZachary Sloan
2013-03-27Got quick_search_table.py to a point where it runs; will...know tomorrow whether it ran correctly or not Zachary Sloan
2013-03-27Worked on trying to get results for quick search to displayZachary Sloan
2013-03-26Continued working on quick_search_table.py, which now gets...all of the terms from the ProbeSet table to be included in the quick search Zachary Sloan
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