| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2020-11-09 | remove unnecessary side_effect set to None | Alexanderlacuna | |
| 2020-11-09 | add tests for geno_db_exists in marker_regression/run_mapping.py | Alexanderlacuna | |
| 2020-11-09 | add test for get_genofile_samplelist in marker_regression/run_mapping.py | Alexanderlacuna | |
| 2020-11-09 | mock logger in marker_regression/gemma_mapping.py | Alexanderlacuna | |
| 2020-11-09 | add test for run_gemma function in marker_regression/gemma_mapping.py | Alexanderlacuna | |
| 2020-11-09 | refactor marker_regression/gemma-mapping.py run-gemma function to avoid ↵ | Alexanderlacuna | |
| Index Error | |||
| 2020-11-08 | add tests for marker_regression/plink_mapping.py | Alexanderlacuna | |
| 2020-11-08 | add tests for marker_regression/gemma_mapping | Alexanderlacuna | |
| 2020-11-08 | Change defaultline argument in the build_line_list from None to empty string | Alexanderlacuna | |
| 2020-11-06 | Removed the page selection from the top of the table because it created an ↵ | zsloan | |
| awkward gap between the column show/hide buttons and the table, and this table will be changed to use Scroller instead of paging soon regardless | |||
| 2020-11-06 | Changed the show/hide column buttons to use DataTables API + a few other ↵ | zsloan | |
| changes (for some reason none of my changes could be pushed from one of my local branches to origin/testing, so they're combined in this commit) - Fixed a couple column header glossary links to point to GN1 - Added trait_list.css for styling a couple elements common to similar pages (like correlations or view collection) | |||
| 2020-11-06 | Added min-width for the divs containing the analysis tools and table ↵ | zsloan | |
| options, since they would look weird if the window shrunk below a certain width Also made some indentation more consistent | |||
| 2020-11-06 | Added new css file for pages that have trait list tables (not sure what else ↵ | zsloan | |
| to call them, but pages like search results, view collection, and correlation results) | |||
| 2020-11-06 | Increased the min-width for the show_trait page container div for all the ↵ | zsloan | |
| accordion sections, since previously it could get too narrow and cause text to extend beyong the borders of each accordion area | |||
| 2020-11-06 | After I changed some class names in the trait page to use - instead of _ (to ↵ | zsloan | |
| keep naming consistent) I forgot to change the references in show_trait_mapping_tools.js (which broke the functionality of clicking a tab doing mapping) | |||
| 2020-11-04 | Merge pull request #480 from zsloan/bug/correlation_sort_fix | zsloan | |
| Fix sorting on the Tissue and Literature r/rho columns in correlation page | |||
| 2020-11-04 | Changed numeric-html sorting for the Tissue/Lit r columns to ↵ | zsloan | |
| natural-minus-na so it deals with the "--" values * wqflask/wqflask/templates/correlation_page.html - Replaced numeric-html sorting with natural-minus-na for the lit/tissue r columns | |||
| 2020-11-04 | Merge pull request #475 from Alexanderlacuna/test-showtrait | BonfaceKilz | |
| Add more tests for show trait module | |||
| 2020-11-04 | correct a typo | Alexanderlacuna | |
| 2020-11-04 | remove extra whitespace | Alexanderlacuna | |
| 2020-11-04 | remove whitespace in line 119-120 | Alexanderlacuna | |
| 2020-11-04 | remove whitespace | Alexanderlacuna | |
| 2020-11-04 | remove whitespace and assertIs | Alexanderlacuna | |
| 2020-11-03 | Merge pull request #479 from zsloan/bug/haplotype_analyst_error_fix | zsloan | |
| Bug/haplotype analyst error fix | |||
| 2020-11-03 | Changed the syntax for the "sort" function in the docstring of GeneralObject ↵ | zsloan | |
| to be compatible with Python 3 syntax * wqflask/base/GeneralObject.py - edited docstring to be correct for Python 3 | |||
| 2020-11-03 | Fixed a sort used when doing the haplotype analysis to be compatible with ↵ | zsloan | |
| Python 3 * wqflask/wqflask/marker_regression/display_mapping_results.py - The arguments for sort are different in Python 3, so it was changed to be compatible | |||
| 2020-11-03 | Merge pull request #478 from zsloan/loading_page_n_fix | zsloan | |
| Joined sample names in primary_samples and all_samples with commas be… | |||
| 2020-11-03 | Joined sample names in primary_samples and all_samples with commas because ↵ | zsloan | |
| this list was being split to get the N of samples; not sure why this was working before * wqflask/wqflask/show_trait/show_trait.py primary_samples and all_samples passed as hidden form inputs now have names split by commas so they can be counted correctly when displaying the N on the mapping loading screen | |||
| 2020-11-03 | Update issue and PR templates | BonfaceKilz | |
| * .github/ISSUE_TEMPLATE/bug_report.md: Provide explanations in commented out blocks. * .github/ISSUE_TEMPLATE/feature_request.md: Ditto. * .github/PULL_REQUEST_TEMPLATE.md: Ditto. * .github/ISSUE_TEMPLATE/user_story.md: Ditto. | |||
| 2020-11-03 | Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 into ↵ | Alexanderlacuna | |
| test-showtrait | |||
| 2020-11-03 | remove unnecessary comments | Alexanderlacuna | |
| 2020-11-03 | add pep8 formatting | Alexanderlacuna | |
| 2020-11-03 | add tests for the get_categorical_variables function | Alexanderlacuna | |
| 2020-11-03 | switch from assertFalse to assertIs | Alexanderlacuna | |
| 2020-11-03 | Remove stale file | BonfaceKilz | |
| * jquery.qtip.css: Delete it. | |||
| 2020-11-03 | switch from assertTrue/False to assertIs to make the tests tighter | Alexanderlacuna | |
| 2020-11-03 | use assertTrue and assertFalse in while testing boolean | Alexanderlacuna | |
| 2020-11-02 | Merge pull request #476 from zsloan/correlation_errors_fix | zsloan | |
| Correlation errors fix | |||
| 2020-11-02 | Created function for encoding the column value as bytes when fetching from ↵ | zsloan | |
| the JSON-formatted string pulled from Redis (since this was needed after the Python 3 switchover) * wqflask/utility/redis_tools.py - Created function load_json_from_redis that encodes the key (column_value) when fetching a value from the JSON pulled from Redis | |||
| 2020-11-02 | Changed correlation page logic to skip over traits that share fewer than 6 ↵ | zsloan | |
| samples + traits that user doesn't have permission to access * wqflask/wqflask/correlation/show_corr_results.py - Moved the num_overlap check so that it never attempts to calculate the correlation if it's too low + checked if trait_object is None in the main loop (since it would be returned as None if the user doesn't have permissions | |||
| 2020-11-02 | add better formatting | Alexanderlacuna | |
| 2020-11-02 | add function docstring | Alexanderlacuna | |
| 2020-11-02 | add tests for show trait module | Alexanderlacuna | |
| 2020-11-01 | Merge pull request #472 from Alexanderlacuna/test-branch | BonfaceKilz | |
| Adding more Test for show_trait module | |||
| 2020-10-31 | Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 into ↵ | Alexanderlacuna | |
| test-branch | |||
| 2020-10-31 | Removed a line adding the ceiling of the Max LRS to the Y axis, since it has ↵ | zsloan | |
| the potential to cause an axis tick to appear above the figure * wqflask/wqflask/marker_regression/display_mapping_results.py - Removed a line adding the ceiling of the max LRS/LOD value to the Y axis | |||
| 2020-10-31 | remove redundant classes | Alexanderlacuna | |
| 2020-10-31 | use descriptive variable names | Alexanderlacuna | |
| 2020-10-31 | Use more descriptive variable and class names | Alexanderlacuna | |
| 2020-10-30 | Merge pull request #474 from zsloan/mapping_y_axis_fix | zsloan | |
| Mapping Y Axis Fix | |||
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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