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2020-11-05Removed html from generate_corr_json since that will be done by the column ↵zsloan
definitions after passing the data to DataTables as JSON
2020-11-05Imported Scroller and used it with correlation page tablezsloan
2020-11-05remove duplicatesAlexanderlacuna
2020-11-05add test for samplelist and show_traitAlexanderlacuna
2020-11-04Merge pull request #480 from zsloan/bug/correlation_sort_fixzsloan
Fix sorting on the Tissue and Literature r/rho columns in correlation page
2020-11-04Changed 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
2020-11-04Use new glossary link from glossary_blueprint in html templatesBonfaceKilz
2020-11-04Add missing imageBonfaceKilz
2020-11-04Add link markers to elements which are referenced from elsewhereBonfaceKilz
2020-11-04Update test_markdown_routesBonfaceKilz
* wqflask/tests/unit/wqflask/test_markdown_routes.py (test_render_markdown_when_fetching_locally): Fix failing test.
2020-11-04Add an edit link button to glossary pageBonfaceKilz
2020-11-04Wrap rendered content in div containerBonfaceKilz
2020-11-04Update glossary markdown fileBonfaceKilz
2020-11-04Merge pull request #475 from Alexanderlacuna/test-showtraitBonfaceKilz
Add more tests for show trait module
2020-11-04correct a typoAlexanderlacuna
2020-11-04remove extra whitespaceAlexanderlacuna
2020-11-04remove whitespace in line 119-120Alexanderlacuna
2020-11-04remove whitespaceAlexanderlacuna
2020-11-04remove whitespace and assertIsAlexanderlacuna
2020-11-04Use python3-genenetwork2 docker image on commit 0bf4ee6BonfaceKilz
2020-11-03Merge pull request #479 from zsloan/bug/haplotype_analyst_error_fixzsloan
Bug/haplotype analyst error fix
2020-11-03Changed 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
2020-11-03Fixed 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
2020-11-03Fix false-positive testsBonfaceKilz
* wqflask/tests/unit/wqflask/test_markdown_routes.py: (MockRequests404): Pass self in all properties. (MockRequests200): Ditto. (test_render_markdown): Rename to test_render_markdown_when_fetching_locally. (test_render_markdown_when_fetching_remotely): New test.
2020-11-03Merge pull request #478 from zsloan/loading_page_n_fixzsloan
Joined sample names in primary_samples and all_samples with commas be…
2020-11-03Joined 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
2020-11-03Delete fileBonfaceKilz
* wqflask/tests/integration/test_glossary.py: Delete it. Earlier renamed to test_markdown_routes.
2020-11-03Add basic tests for rendering_markdownBonfaceKilz
* wqflask/tests/unit/wqflask/test_markdown_routes.py: New tests.
2020-11-03Add basic structure for "/glossary" routes testBonfaceKilz
2020-11-03Update issue and PR templatesBonfaceKilz
* .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.
2020-11-03Move logic for fetching md files to it's own functionBonfaceKilz
* wqflask/wqflask/markdown_routes.py (render_markdown): New function. (glossary): use render_markdown function.
2020-11-03Use python3-genenetwork2 on commit bdce85d in containerBonfaceKilz
* .github/workflows/main.yml: Update gn2 container.
2020-11-03Add simple md content in glossary.mdBonfaceKilz
2020-11-03Update glossary template with markdown contentBonfaceKilz
2020-11-03Rename glossary.py to markdown_routes.pyBonfaceKilz
Evary page with markdown content will have routes added in markdown_routes.py * markdown_routes.py: New file. * wqflask/wqflask/glossary.py: Delete it. * wqflask/wqflask/__init__.py: Update import.
2020-11-03Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 into ↵Alexanderlacuna
test-showtrait
2020-11-03remove unnecessary commentsAlexanderlacuna
2020-11-03add pep8 formattingAlexanderlacuna
2020-11-03add tests for the get_categorical_variables functionAlexanderlacuna
2020-11-03Remove encoding header for fileBonfaceKilz
In python3 the default encoding is utf-8 so this is redundant.
2020-11-03Separate unittests from integration testsBonfaceKilz
2020-11-03Add test for "/glossary" routeBonfaceKilz
2020-11-03Add glossary template and use itBonfaceKilz
2020-11-03Add and register glossary blueprintBonfaceKilz
2020-11-03Apply PEP-8 to fileBonfaceKilz
* wqflask/wqflask/__init__.py: Remove unused import and variables. Also add module docstring and pylint errors to ignore. (before_request): Use correct spacing.
2020-11-03switch from assertFalse to assertIsAlexanderlacuna
2020-11-03Remove stale fileBonfaceKilz
* jquery.qtip.css: Delete it.
2020-11-03switch from assertTrue/False to assertIs to make the tests tighterAlexanderlacuna
2020-11-03use assertTrue and assertFalse in while testing booleanAlexanderlacuna
2020-11-02Merge pull request #476 from zsloan/correlation_errors_fixzsloan
Correlation errors fix
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