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2015-06-18removed unused functionArtem Tarasov
2015-05-12Add info to warningpjotrp
2015-05-12More elaborate handling of finding pylmmPjotr Prins
2015-05-12Move path search into tools.pypjotrp
2015-05-11Moving pylmm out of the treepjotrp
2014-08-12Fixed the scrollable data tables for the show trait pageZachary Sloan
Added the option to display the rqtl results (and soon other mapping results) as either a manhattan plot or "interval map" style curve chart Removed a couple unnecessary javascript imports Changed the function in helper_functions.py that creates the trait and dataset objects, making it to where the trait object also gets qtl info Fixed color by trait after it was broken by the "scatterplot matrix" function
2014-07-18Added outlier highlightingZachary Sloan
Changed order of tabs in statistics panel on trait page Started working on heatmap
2014-05-05Committing a bunch of changes related to integrating GEMMA andZachary Sloan
adding the correlation matrix page
2014-02-27Began working on a TraitCollection.py file that will contain both theZachary Sloan
object for logged in user collections and collections created by anonymous users.
2013-10-17Sample objects are now passed to js_data for drawing the correlationLei Yan
scatter plot
2013-10-11Merge /home/sam/geneLei Yan
2013-10-07Worked on logins, session_ids, flash messages, etc.Sam
2013-09-13Merge https://github.com/zsloan/genenetworkLei Yan
Resolved conflicts: wqflask/base/trait.py wqflask/wqflask/correlation/correlationFunction.py wqflask/wqflask/correlation/correlation_function.py wqflask/wqflask/correlation/correlation_functions.py wqflask/wqflask/correlation/show_corr_results.py
2013-07-19Finished integrating code that reads sample list from geno filesZachary Sloan
withouot using reaper and caches results so it doesn't need to read the file every single time someone loads a page
2013-07-12Rewrote code related to getting the tissue correlation column to displayLei Yan
Created new files for mrna assay tissue data and commonly used db query related functions
2013-06-20Added file corr_result_helpers.py that includes the function thatZachary Sloan
normalizes the lists of sample values
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
2013-06-13Fixed issue where too much memory was used as a result of creating aLei Yan
dataset object for each trait in the correlation results Added new fields/columns for each trait in the correlation result table (max LRS, max LRS location, mean expression) Fixed error if trait doesn't have these fields
2013-05-23Lots of changes around usersSam
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
2013-04-18The plink_input is split into chunks that are stored in temp_data, butZachary Sloan
we might decide to store it differently
2013-04-17Created file with pickled SNPIterator (from input.py) dataZachary Sloan
for HLC datasets Still need to read in file
2013-04-05Loading bar now correctly shows the time to completionZachary Sloan
and the code seems to run correctly
2013-03-12Got cashing working with pickleZachary Sloan
2013-03-07Have first 45% of progress bar workingZachary Sloan
Changed "threaded" to True in runserver.py; this fixed issue related to getting progress bar to work
2013-03-07Created file temp_data to store data related to progressZachary Sloan
of the marker regression calculations Storing progress of kinship matrix calculation in variable as portion of 45 (the rough percent of total marker regression calculation time
2013-02-28Updated benchmark.py to aggregate run times when you run theZachary Sloan
operation(s) multiple times
2013-02-28Added benchmark.py that compares the time of various operationsZachary Sloan
and gives a report with the percent of total computation time each takes
2013-02-19Made lines for manhattan plot proportional to chromosome lengthsZachary Sloan
2013-01-31Changed reference to 'dataset_name' in keywords to 'dataset' to getZachary Sloan
page to work, but will change all references to the dataset name to 'dataset_name' in future to avoid confusion between the dataset name and the actual dataset object
2013-01-22Pushed through a few errors in getting the correlation page runningZachary 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
2012-09-27Worked on getting attributes in the SampleList object to display data ↵Zachary Sloan
properly, changed SampleList from an object list to object
2012-09-26Worked on implementing the extra attributes feature on the trait data pageZachary Sloan
2012-08-29Fixed so that outliers are now correctly highlightedZachary Sloan
2012-08-28Various changes related to the webqtlCaseData object and the way ↵Zachary Sloan
values/variances/num_cases are called in DataEditingPage.py
2012-06-22Working my way through getting the review and edit data dynamically ↵Sam Ockman
generated in Jinja2
2012-06-05Ran reindent.py recursively on wqflask directorySam Ockman
2012-06-02Coming along in trying to get trait page workingSam Ockman
2012-05-24Trying to get stuff working under new structureSam Ockman
generated by cgit v1.2.3 (git 2.44.0) at 2024-11-24 12:12:29 +0000