| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2018-03-26 | - Disabled PYTHONPATH injection - fix Guix instead, see ↵ | Pjotr Prins | |
| https://github.com/pjotrp/genenetwork2/commit/63a5c8a42ad02e9126bb207465ff5eca98f6515d - Renamed WQFLASK_SETTINGS to GN2_SETTINGS | |||
| 2018-03-26 | Fixing authentication stuff so it uses parameters properly. Also no ↵ | Pjotr Prins | |
| PYTHONPATH needed as it is now in the Guix build. | |||
| 2018-03-26 | Add SMTP configuration variables | Muriithi Frederick Muriuki | |
| * Add configuration variables to enable the system connect to the configured SMTP server to send out emails. | |||
| 2018-03-26 | Set to None if no value provided | Muriithi Frederick Muriuki | |
| * Add a method to set the configuration variables to None if the configuration values are not provided at startup or in the configuration files. The system already checks for these values, and if they are absent, it simply fails to display the OAuth service as available for use to login. | |||
| 2018-03-26 | Update configurations | Muriithi Frederick Muriuki | |
| * Have the authorisation URLs build up from the client id and client secret values. | |||
| 2018-03-26 | Add more configuration variables. | Muriithi Frederick Muriuki | |
| * Add configurations for elasticsearch and github. | |||
| 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 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. | |||
| 2018-02-10 | Fixed finding PATHs - one return statement! | Pjotr Prins | |
| 2018-02-10 | Check for bimbam path and bail out if it is missing | Pjotr Prins | |
| 2017-12-20 | tools: find path for JS and gemma_wrapper | Pjotr Prins | |
| 2017-12-20 | Bring in some earlier work - mostly documentation and startup handling | Pjotr Prins | |
| 2017-09-04 | gemma-wrapper: find binary in profile | Pjotr Prins | |
| 2017-06-12 | Fix binary paths for GEMMA_COMMAND, PYLMM_COMMAND and PLINK_COMMAND | Pjotr Prins | |
| 2017-06-02 | settings: do not enforce JS paths | Pjotr Prins | |
| 2017-05-31 | JS_GUIX_PATH may not be there | Pjotr Prins | |
| 2017-05-31 | JS module handling | Pjotr Prins | |
| 2017-05-21 | Merge from the diet branch. | Pjotr Prins | |
| * refactored ./bin/genenetwork2 and /etc/default_settings - better detection of Guix - removed unused parameters, such as GEMMA_RESULT_PATH and TEMP_TRAITS - removing some default settings, such as PYLMM_COMMAND - rename some settings, such as SQL_URI and LOG_SQL_ALCHEMY - added GUIX_JS_PATH for JS modules * Added documentation on installing binary GN2 * Updated Twitter board to latest version in Guix - it had broken * Updated many tools in the latest Guix profile | |||
| 2017-02-06 | Fixed appearance of several tables (search, mapping results, sample data) | zsloan | |
| Temporarily removed second sample table for CFW traits Fixed location of global search bar to work with wider screens | |||
| 2017-01-26 | GEMMA now works with CFW data (had to update where it looks for the input ↵ | zsloan | |
| files and how it writes the phenotype file) Y-axis for GEMMA now says -log(p) Updated the style of the trait sample data table in the trait page Updated dataset_select_menu_orig.js to also build just the Species and Group drop-downs for the trait input page (as opposed to all 4 drop-downs) Updated dataset menu json file Added option to show and hide columns to regular search page using colVis Changed regular and global search result table styles/column widths Began work on user trait submission code (not working yet though) Began work on static loading page for mapping results | |||
| 2016-10-11 | Merge branch 'pjotr-gn2' into testing | Pjotr Prins | |
| 2016-10-09 | Add version information | Pjotr Prins | |
| 2016-10-07 | Make sure JS path exists | Pjotr Prins | |
| 2016-10-07 | Changed error output | Pjotr Prins | |
| 2016-10-07 | Saner handling of TMPDIR and TEMPDIR | Pjotr Prins | |
| Throw error when TMPDIRs are not writable | |||
| 2016-10-03 | Config: supporting JSON OVERRIDES | Pjotr Prins | |
| 2016-10-03 | Debug: sanitize some output | Pjotr Prins | |
| 2016-09-25 | Make sure MAPPING_PATH exists | Pjotr Prins | |
| 2016-09-25 | tools: export GENENETWORK_FILES and move cache into TMPDIR/gn2 | Pjotr Prins | |
| 2016-09-10 | Support for running maintenance scripts so they can pick up all webserver ↵ | Pjotr Prins | |
| settings Run with ./bin/genenetwork2 ~/my_settings.py -c ./wqflask/maintenance/gen_select_dataset.py | |||
| 2016-06-24 | Log: and document SQL calls | Pjotr Prins | |
| 2016-06-23 | Logger: improved logging | Pjotr Prins | |
| 2016-06-23 | Settings: add GN_SERVER_URL | Pjotr Prins | |
| 2016-06-21 | logger: add format field (reserve) | Pjotr Prins | |
| 2016-06-21 | Logger: switch for logging SQLALCHEMY | Pjotr Prins | |
| 2016-06-21 | Benchmarking: allow output select with LOG_BENCH | Pjotr Prins | |
| 2016-06-19 | gn_server: SQL handling | Pjotr Prins | |
| 2016-06-19 | Renamed settings so they are grouped together | Pjotr Prins | |
| 2016-06-18 | Logging settings | Pjotr Prins | |
| 2016-06-18 | Logger: more info | Pjotr Prins | |
| 2016-06-18 | Logger: introducing logging | Pjotr Prins | |
| 2016-06-18 | Logging: behaviours | Pjotr Prins | |
| 2016-06-18 | Logger: improving output | Pjotr Prins | |
| 2016-06-18 | Logger: introducing logging | Pjotr Prins | |
| 2016-06-17 | Conflict | Pjotr Prins | |
| 2016-06-17 | Removed trailing spaces in .py and .js files | Pjotr Prins | |
| 2016-06-16 | Introduce behaviour parameters to facilitate development | Pjotr Prins | |
| 2016-04-20 | A few fixes to get the webserver running again | Pjotr Prins | |
| 2016-04-20 | Show error when GENODIR is missing | Pjotr Prins | |
| 2016-04-20 | [PATCH 042/100] Sanitizing locations | Pjotr Prins | |
 |
index : genenetwork2 | |
| GeneNetwork (2nd generation) |
| aboutsummaryrefslogtreecommitdiff |