| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2018-03-26 | Add code to enable OAuth2 login | Muriithi Frederick Muriuki | |
| * Add some code to handle the login if the user chooses to login via GitHub or ORCID. | |||
| 2018-03-26 | Delay after save for indexing | Muriithi Frederick Muriuki | |
| * Elasticsearch need a short delay after adding document for it to index the document for subsequent access. | |||
| 2018-03-26 | Add more configuration variables. | Muriithi Frederick Muriuki | |
| * Add configurations for elasticsearch and github. | |||
| 2018-03-26 | Add save_user() function | Muriithi Frederick Muriuki | |
| * On successful login via OAuth2, save the details of the user in elasticsearch store, to avoid hitting the external provider for the basic details. | |||
| 2018-03-26 | Add elasticsearch module to the path | Muriithi Frederick Muriuki | |
| * Add some code to set up the path for the python-elasticsearch module. | |||
| 2018-03-26 | Add functions to help handle github login | Muriithi Frederick Muriuki | |
| * Add functions to help with the github OAuth2 login process | |||
| 2018-03-26 | Add elasticsearch_tools module | Muriithi Frederick Muriuki | |
| * Collect variables and functions for using the elasticsearch system in a separate module. | |||
| 2018-03-26 | Add client_id and client_secret configurations | Muriithi Frederick Muriuki | |
| * Provide the OAuth2 client_id and client_secret values in configuration variables. | |||
| 2018-03-26 | Add template elements for OAuth login | Muriithi Frederick Muriuki | |
| * Add html elements that will be used to prompt users to login with either GitHub or ORCID. | |||
| 2018-03-26 | Add configuration variables for external services | Muriithi Frederick Muriuki | |
| * Add configuration variables for GitHub and ORCID which will be used by the system to allow users to login. | |||
| 2018-03-22 | Change raise statement | Muriithi Frederick Muriuki | |
| * Change the raise statement to use an Exception object rather than using a string for compatibility with Python3. | |||
| 2018-03-22 | Fix 'def' statement | Muriithi Frederick Muriuki | |
| * End the 'def' statement with a colon (:) * Add an empty line between lines at different indentation levels for clarity. | |||
| 2018-03-21 | Use logger.info instead of logger.debug, fixes ↵ | Pjotr Prins | |
| https://github.com/genenetwork/genenetwork2/issues/296 | |||
| 2018-03-21 | Skip automatic use of EXPLAIN_TEMPLATE_LOADING. | Pjotr Prins | |
| 2018-03-21 | Deactivate navigation tests | Muriithi Frederick Muriuki | |
| * Navigation depends on Javascript to render the elements being tested. That would require selenium and its ilk to run such tests, meaning such packages would need to be defined for Guix first. | |||
| 2018-03-20 | Refactor startup config for gunicorn and werkzeug | Pjotr Prins | |
| 2018-03-20 | Fix | Pjotr Prins | |
| 2018-03-20 | Authentication: some mods around defaults | Pjotr Prins | |
| 2018-03-19 | Initialise navigation tests. | Muriithi Frederick Muriuki | |
| * Start working on navigation tests. | |||
| 2018-03-19 | * Add mapping tests. Fix link-checker tests. | Muriithi Frederick Muriuki | |
| * Add tests for the R/qtl and CIM mapping tools. * Fix tests for in-page links. | |||
| 2018-03-19 | RELEASENOTES | Pjotr Prins | |
| 2018-03-19 | - Disabled PYTHONPATH injection - fix Guix instead, see ↵ | Pjotr Prins | |
| https://github.com/pjotrp/genenetwork2/commit/63a5c8a42ad02e9126bb207465ff5eca98f6515d - Renamed WQFLASK_SETTINGS to GN2_SETTINGS | |||
| 2018-03-19 | Merge pull request #5 from fredmanglis/testing | Pjotr Prins | |
| Testing | |||
| 2018-03-18 | Initialise mapping tests | Muriithi Frederick Muriuki | |
| * Add mapping tests, and build the first of the tests. | |||
| 2018-03-18 | Move import to the top of the page. | Muriithi Frederick Muriuki | |
| * Mainly to tell the dependencies easily. | |||
| 2018-03-18 | Check that key exists before using it | Muriithi Frederick Muriuki | |
| * Ensure the key exists in the json object/dictionary, before trying to use it to retrieve a value. | |||
| 2018-03-16 | Just undoing tabulator changes so I can push other changes | zsloan | |
| 2018-03-15 | Changed appearance of mapping and correlation options on trait page | zsloan | |
| Fixed issue where changed sample values were not passed to qtlreaper mapping ("Interval Mapping") Loading factors and their plot are hidden in situations where there's some error with calculating principal components Added GEMMA description and changed order of descriptions for mapping options on trait page | |||
| 2018-03-14 | Add tests for main web functionality | Muriithi Frederick Muriuki | |
| 2018-03-12 | Add tests to check links. | Muriithi Frederick Muriuki | |
| 2018-03-09 | Add link_checker module | Muriithi Frederick Muriuki | |
| * Add the module that will hold the code to test the links on the system. | |||
| 2018-03-09 | Use argparse to handle arguments | Muriithi Frederick Muriuki | |
| * Use argparse to handle commandline arguments. * Create initial layout of how the code might end up - lots of the code is currently commented out. | |||
| 2018-03-05 | rename draw_corr_scatterplot-2.js to draw_corr_scatterplot.js | Lei Yan | |
| 2018-03-05 | update Correlation Scatterplot | Lei Yan | |
| 2018-03-02 | Added option to display selected covariates for GEMMA mapping | zsloan | |
| Changed layout/appearance of mapping options Partially fixed issue with deleting collections Changes to correlation table still in progress; having trouble getting tabulator to load JSON | |||
| 2018-02-28 | Forgot to import function assert_file | zsloan | |
| 2018-02-28 | Fixed issue that caused some GEMMA results to appear incorrectly | zsloan | |
| 2018-02-28 | Merge branch 'testing' of https://github.com/genenetwork/genenetwork2 | zsloan | |
| 2018-02-26 | Merge /home/lei/gene into testing | zsloan | |
| 2018-02-26 | Committing some in-progress changes related to loading correlation page from ↵ | zsloan | |
| JSON | |||
| 2018-02-23 | Add tests to check that the UI is setup correctly | Muriithi Frederick Muriuki | |
| * Check that the links for OAuth2 logins via ORCID and GitHub are setup correctly. | |||
| 2018-02-23 | Provide connections to elasticsearch | Muriithi Frederick Muriuki | |
| * Provide connections to elasticsearch at various points in the code. These oversight was caught while running tests. | |||
| 2018-02-23 | Add new tests for orcid logins | Muriithi Frederick Muriuki | |
| 2018-02-23 | Add new test for github logins | Muriithi Frederick Muriuki | |
| 2018-02-23 | Remove failing code | Muriithi Frederick Muriuki | |
| * With the parameterized module, the testcase cannot be run independently at this time. | |||
| 2018-02-23 | update corr scatterplot interface | Lei Yan | |
| 2018-02-21 | Simplify test. Check for content, rather than url | Muriithi Frederick Muriuki | |
| * The test functions were very similar, so this commit refactors out the common test code to a single method, and passes in the data to the test using the parameterized package. * Check that the page content after a login attempt is the expected content, rather than checking the url. | |||
| 2018-02-21 | Fix assumption of existing collection | Muriithi Frederick Muriuki | |
| * When logging in, if a user selects "Import existing collections", the system would throw an exception, since Redis would return a NoneType, which would then be accessed by json.loads(), which doesn't seem to know how to process that. This fixes that, by providing a string representing an empty json array ("[]"), in place of the NoneType. | |||
| 2018-02-19 | Add more login tests. | Muriithi Frederick Muriuki | |
| 2018-02-19 | Add a runner for all integration tests. | Muriithi Frederick Muriuki | |
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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