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2021-08-26Fixed bug caused by pair_scan not always being set to a defaultzsloan
2021-08-26Store figure and table data for pair_scan in run_mapping.pyzsloan
2021-08-26Added pair_scan parameter to rqtl_mapping.run_rqtl and fixed setting ↵zsloan
mapmethod_rqtl and mapmodel_rqtl in run_mapping.py
2021-08-26Added defaults for mapmethod_rqtl and mapmodel_rqtl to show_trait.pyzsloan
2021-08-26Changed mapmethod/mapmodel variables names in mapping_results_page (the way ↵zsloan
these variables are passed is really dumb but I'm not sure how to better deal with the situation)
2021-08-26Fixed mapmethod/mapmodel variables names in mapping_input_listzsloan
2021-08-26Fixed some issues with the Pair Scan options and JSzsloan
2021-08-26Added JS for submitting pair scan from trait pagezsloan
2021-08-26Added Pair Scan options to the Mapping Tools tab in the trait pagezsloan
2021-08-26Added check for pair_scan in start_varszsloan
2021-08-25Fix issue where correlation results weren't included parents/f1szsloan
2021-08-25Fixed issue in get_diff_of_vals that caused the diff to be calculated wrong ↵zsloan
(due to one set of values being rounded to 3 digits and the other not
2021-08-25Add map scale option that was missing for groups with only a single genotype ↵zsloan
file
2021-08-25Fix issue that could cause an error when doing cM mappingzsloan
2021-08-25Fix issue that could cause mapping_scale to not be set correctly in ↵zsloan
show_trait.py
2021-08-24README: on installing GN2Pjotr Prins
2021-08-24README: minor editsPjotr Prins
2021-08-24README: install with guix profilePjotr Prins
2021-08-23Merge pull request #599 from zsloan/bug/fix_mapping_recompute_issuezsloan
Bug/fix mapping recompute issue
2021-08-23Removed unused variable from list of 'wanted' variables for mappingzsloan
2021-08-23Fixed issue with the way categorical_vars and perm_strata were being passed ↵zsloan
to the template
2021-08-23Account for situations where the minimum permutation value is also above ↵zsloan
webqtlConfig.MAXLRS; previously threw an error
2021-08-23Fix get_perm_strata to usethe Ids for case attributes instead of names + ↵zsloan
allow perm_strata to be passed to the template
2021-08-23Fix the way categorical_var_list is set to account for case attribute Ids ↵zsloan
being keys now instead of names
2021-08-23Include categorical_vars in mapping_results.html so they're included when ↵zsloan
recomputing
2021-08-23For some reason sample_data was being set twice, and the second time used a ↵zsloan
test function that does not exclude parents/f1s (causing the N to be wrong if parents/f1s exist)
2021-08-20Fixed some logic in trait.py that could cause a problem if a dataset_name ↵zsloan
was passed that wasn't Temp
2021-08-20Fix issue where attempting to get the diff of vals for Temp traits was ↵zsloan
causing an error
2021-08-20startup_config.py: Add DebugToobarExtension for wsgi DEBUG modeBonfaceKilz
* wqflask/utility/startup_config.py (app_config): Add DebugToolbarExtension
2021-08-19Change color for Submit button when selecting covariates + move Back button ↵zsloan
to the far right
2021-08-19Fixed R/qtl 'select covariates' buttons to be the same as the changed ones ↵zsloan
for GEMMA
2021-08-19Fixed issue in JS that caused filter_by_value to not work for case attributeszsloan
2021-08-19Fixed the way the drop-down for Filter by Value set values for the case ↵zsloan
attributes
2021-08-19Added type='button' to the mapping compute buttons in order to prevent them ↵zsloan
from being submitted twice
2021-08-19Add hash of vals and diff of vals to template_vars passed to loading page in ↵zsloan
views.py
2021-08-19Fix issues caused by the attribute keys being ids instead of names + fix ↵zsloan
issue caused by an attribute cell being empty
2021-08-19Exclude attributes with only one distinct value as wellzsloan
2021-08-19Removed some unnecessary empty lines from loading.html JSzsloan
2021-08-19Added function for getting the diff of sample values before and after user ↵zsloan
changes to show_trait.py
2021-08-19Added hash of sample values and table of changed values to the loading pagezsloan
2021-08-19Added option to make collection default in the colorbox pop-upzsloan
2021-08-19Shorten 'Add to existing collection' button to 'Add'zsloan
2021-08-19Removed ID of 'submit' from the button in the cofactor select table, since ↵zsloan
it was causing trait page forms to not submit after opening it
2021-08-19After removing all cofactors, return the size of the select element to 2zsloan
2021-08-19Changed Remove All button to Clear and changed Select and Clear button colorszsloan
2021-08-19Add some CSS changing the way the colorbox pop-up for adding covariates ↵zsloan
looks on the trait page
2021-08-19Add Removal All button that removes all currently added covariateszsloan
2021-08-19Update show_trait.js to make removing covariates work with the new select ↵zsloan
element; individual covariates can now be removed
2021-08-19Update get_covariates_from_collection.js to properly interact with the ↵zsloan
select element instead of the previous textarea
2021-08-19Replace textarea with multiple select element for displaying mapping covariateszsloan
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