| Age | Commit message (Expand) | Author |
|---|
| 2013-06-19 | Merge branch 'flask' of git://github.com/zsloan/genenetwork into flask•••Conflicts:
wqflask/base/data_set.py
| Lei Yan |
| 2013-06-19 | :Merge git://github.com/zsloan/genenetwork into flask•••Conflicts:
wqflask/requirements.txt
| Lei Yan |
| 2013-06-19 | Changed QTL parameter name to "get_qtl_info" on trait.py and•••other places it's called, like search_results.py
Added other trait info fields to correlation results page
| Lei Yan |
| 2013-06-13 | Fixed issue where too much memory was used as a result of creating a•••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
| Lei Yan |
| 2013-06-13 | Put the template html for the quick search page when all trait types•••are displayed in a separate file that is included in quick_search.html
| Zachary Sloan |
| 2013-06-12 | Fixed a couple issues with the template that caused the•••regular search results and show trait page to not display
| Zachary Sloan |
| 2013-06-11 | Put 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 |
| 2013-05-31 | Fixed 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 |
| 2013-05-30 | Rewrote some code in get_trait_info in dataset.py•••Added spearman correlation to show_corr_results and template
| Lei Yan |
| 2013-05-28 | Have correlation values appearing in a table in the template•••Use scipy to calculate pearson correlation instead of old GN code
| Lei Yan |
| 2013-05-23 | Worked on rewriting the function in data_set.py that gets the sample•••values for each trait
| Lei Yan |
| 2013-05-23 | Changed the way the query that gets sample ids is generated | Lei Yan |
| 2013-05-23 | Now calculates correlation values for traits, but not yet in template | Lei Yan |
| 2013-05-21 | Added caching to the search page (for both regular and quick searckes) | Zachary Sloan |
| 2013-05-17 | Did a little work with quick search page | Zachary Sloan |
| 2013-05-16 | Made the first level of quick search tabs species, followed by•••trait type (was the opposite before Rob commented on it earlier
today)
| Zachary Sloan |
| 2013-05-09 | Just added some print statements so I can show matrix/vector•••shapes to Tony
| Zachary Sloan |
| 2013-05-08 | Merge branch 'flask' of git://github.com/leiyan/genenetwork into flask | Zachary Sloan |
| 2013-05-08 | Worked on correlation page•••Wrote function in dataset.py that gets all the traits in a dataset
and their sample values
| Lei Yan |
| 2013-05-07 | Made some progress adding species/group tabs to the quick search result page to•••make the results easier to navigate
| Zachary Sloan |
| 2013-05-02 | Got quick search code running (but not displaying properly)•••Code that processes subset of snps works, in process of
putting into a class
| Zachary Sloan |
| 2013-04-30 | Merge branch 'flask' of git://github.com/leiyan/genenetwork into flask | Zachary Sloan |
| 2013-04-30 | Changed path to log file•••Added server port to configuration file
| Lei Yan |
| 2013-04-30 | Did a little with correlation_plot.py | Zachary Sloan |
| 2013-04-26 | Added 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 |
| 2013-04-24 | Began writing code that writes some objects used in LMM to redis•••and writes/reads eachitem in the plink_input
| Zachary Sloan |
| 2013-04-24 | Added original pylintrc | Zachary Sloan |
| 2013-04-24 | Checking in quick_search_table.py before using pylin | Zachary Sloan |
| 2013-04-24 | Fixed issue with the part of quick_search_table.py that loads phenotype traits | Zachary Sloan |
| 2013-04-23 | Created 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 |
| 2013-04-19 | Fixed the issue with the x-axis coordinates for marker regression plot | Zachary Sloan |
| 2013-04-18 | The plink_input is split into chunks that are stored in temp_data, but•••we might decide to store it differently
| Zachary Sloan |
| 2013-04-18 | LMM code now reads in gzipped pickled plink snp iterator object | Zachary Sloan |
| 2013-04-18 | input file is now loaded by pickle | Zachary Sloan |
| 2013-04-17 | Created file with pickled SNPIterator (from input.py) data•••for HLC datasets
Still need to read in file
| Zachary Sloan |
| 2013-04-17 | Added a benchmark for running the chunks code on the list of snps | Zachary Sloan |
| 2013-04-17 | Renamed chunk_test.py to chunks.py | Zachary Sloan |
| 2013-04-17 | Updated chunk_test.py | Zachary Sloan |
| 2013-04-17 | Added chunk_test.py which compared my/ and sam's split into•••chunks algorithms' accuracy/speed
| Zachary Sloan |
| 2013-04-17 | Wrote code that tests the effectiveness of the function that divides a•••list into a given number of chunks
| Zachary Sloan |
| 2013-04-17 | Fixed small issue with the divide_into_chunks function•••that caused one too many chunks to be created
| Zachary Sloan |
| 2013-04-16 | Wrote 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 |
| 2013-04-16 | Checking in before making some changes | Zachary Sloan |
| 2013-04-16 | Put most of the code calculating human association statistics in•••lmm.py into a separate function
| Zachary Sloan |
| 2013-04-11 | Fixed 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 |
| 2013-04-10 | Created template for quick search page•••Fixed a couple bugs with quick_search_table.py
| Zachary Sloan |
| 2013-04-09 | Have quick search working for phenotypes | Zachary Sloan |
| 2013-04-09 | Nick'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 |
| 2013-04-05 | Loading bar now correctly shows the time to completion•••and the code seems to run correctly
| Zachary Sloan |
| 2013-04-05 | Made change to nginx config file that seems to have fixed the•••504 gateway timeout issue with the human datasets
| Zachary Sloan |
