| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2018-02-05 | Add SMTP configuration variables | Muriithi Frederick Muriuki | |
| * Add configuration variables to enable the system connect to the configured SMTP server to send out emails. | |||
| 2018-02-05 | Merge remote-tracking branch 'origin/testing' into testing | Muriithi Frederick Muriuki | |
| 2018-01-30 | gunicorn dev and prod modes added | Pjotr Prins | |
| 2018-01-30 | Fail safely if elasticsearch is down or unconfigured | Muriithi Frederick Muriuki | |
| * If elasticsearch server is down, or the configuration variables are not provided at startup or in a configuration file, then do not allow the system to simply crash, but instead, inform the user that they cannot use the services that depend on elasticsearch to be running. | |||
| 2018-01-30 | 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. | |||
| 2018-01-29 | Gunicorn works | Pjotr Prins | |
| 2018-01-29 | startup script: adapting for gunicorn | Pjotr Prins | |
| 2018-01-24 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing | zsloan | |
| 2018-01-24 | Added links for markers in mapping results table when genotypes exist in DB | zsloan | |
| Added more info to trait details for phenotype traits Changed order of mapping methods Fixed layout of mapping loading screen to hopefully be centered on different screen sizes Improved layout of some elements in mapping results page | |||
| 2018-01-19 | Use elasticsearch rather than mysql for local accounts | Muriithi Frederick Muriuki | |
| * Register local accounts onto elasticsearch rather than mysql. * Login from the accounts on elasticsearch * Harmonise local and oauth2 logins to use the same code. | |||
| 2018-01-19 | Add OAuth2 login code for ORCID | Muriithi Frederick Muriuki | |
| * Add code to handle the login via ORCID | |||
| 2018-01-19 | Update configurations | Muriithi Frederick Muriuki | |
| * Have the authorisation URLs build up from the client id and client secret values. | |||
| 2018-01-19 | 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. | |||
| 2018-01-19 | 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. | |||
| 2018-01-19 | Add more configuration variables. | Muriithi Frederick Muriuki | |
| * Add configurations for elasticsearch and github. | |||
| 2018-01-19 | 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. | |||
| 2018-01-12 | Add functions to help handle github login | Muriithi Frederick Muriuki | |
| * Add functions to help with the github OAuth2 login process | |||
| 2018-01-12 | Add elasticsearch_tools module | Muriithi Frederick Muriuki | |
| * Collect variables and functions for using the elasticsearch system in a separate module. | |||
| 2018-01-12 | Add client_id and client_secret configurations | Muriithi Frederick Muriuki | |
| * Provide the OAuth2 client_id and client_secret values in configuration variables. | |||
| 2018-01-10 | 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. | |||
| 2018-01-10 | 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. | |||
| 2018-01-04 | Merge pull request #270 from pjotrp/testing | zsloan | |
| Merge some older commits | |||
| 2017-12-20 | Added submit_bnw even though it isn't working yet, just so views.py doesn't ↵ | zsloan | |
| throw an error | |||
| 2017-12-20 | Fixed issue that caused Mb ticks to get out of alignment for mapping figure | zsloan | |
| 2017-12-20 | Fixed the way PLINK outputs phenotype files (though there's still some ↵ | zsloan | |
| problem preventing it from working) Added some code related to new plotly probability plot, though it's commented out until it looks how I want it to Added some code for adding the BNW link to GN2, though it's not working yet Updated dataset menu structure JSON file | |||
| 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 | |
| 2017-12-06 | Fixed drop-down group order | zsloan | |
| 2017-12-04 | Fixed drop-down scripts to more appropriately deal with BXD300 groups ↵ | zsloan | |
| (though there's still a minor issue with a few datasets) Added some header data to mapping output file Fixed links in Network Group nodes/edges | |||
| 2017-11-22 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing | zsloan | |
| 2017-11-22 | Added option to export csv of full mapping results | zsloan | |
| 2017-11-21 | Merge pull request #258 from lyan6/master | zsloan | |
| improved scatter plots | |||
| 2017-11-17 | Fixed issue that caused GEMMA LOCO to not work on production | zsloan | |
| 2017-11-06 | Replaced Histogram and Bar Chart with Plotly version and added new Box Plot ↵ | zsloan | |
| with Plotly GEMMA now has option to select genotypes Updated dataset select dropdowns to be ordered correctly Fixed dataset select dropdowns for correlations to not show confidential datasets Added Skewness and Kurtosis to Basic Statistics table Fixed Verify and RNA-seq buttons on trait page Temporarily hardcoded Reference page until we get it to link with database | |||
| 2017-10-02 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 | Lei Yan | |
| 2017-10-02 | save as svg button work | Lei Yan | |
| 2017-09-22 | Fixed issue that caused covariates to not work for certain data set groups | zsloan | |
| 2017-09-22 | Fixed issue that caused LOCO to not work when remapping or using single ↵ | zsloan | |
| chromosome view | |||
| 2017-09-21 | LOCO should work with GEMMA (when BIMBAM available), though I still need to ↵ | zsloan | |
| do more testing | |||
| 2017-09-14 | Committing current progress towards implementing LOCO for GEMMA, not done yet | zsloan | |
| 2017-09-13 | update Correlation Scatterplot format | Lei Yan | |
| 2017-09-12 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 | Lei Yan | |
| 2017-09-12 | change corr_scatterplot precision format | Lei Yan | |
| 2017-09-07 | Updated show trait page to correctly show GEMMA options for certain data sets | zsloan | |
| 2017-09-07 | Added the script to convert bimbam to kinship matrices | zsloan | |
| 2017-09-05 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing | zsloan | |
| 2017-09-05 | Added file converting genofiles to bimbam | zsloan | |
| 2017-09-04 | gemma-wrapper: find binary in profile | Pjotr Prins | |
| 2017-08-29 | Mostly changes related to getting gemma working with covariates and BIMBAM ↵ | zsloan | |
| file format Other changes include: - Fixing links in the network graph - Changing button colors on show trait page - Changing color scheme for heatmap - Making rows highlight in yellow when clicked on - Some changes to table appearance (like giving gene global search a horizontal scroll) | |||
| 2017-08-23 | Update corr scatterplot | Lei Yan | |
 |
index : genenetwork2 | |
| GeneNetwork (2nd generation) |
| aboutsummaryrefslogtreecommitdiff |