| Age | Commit message (Expand) | Author |
|---|
| 2018-01-30 | Fail safely if elasticsearch is down or unconfigured...* 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.
| Muriithi Frederick Muriuki |
| 2018-01-30 | Set to None if no value provided...* 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.
| Muriithi Frederick Muriuki |
| 2018-01-29 | Fixed gunicorn example | Pjotr Prins |
| 2018-01-29 | Gunicorn works | Pjotr Prins |
| 2018-01-29 | startup script: adapting for gunicorn | Pjotr Prins |
| 2018-01-29 | Added checks in startup script, removed r-auwerx path | Pjotr Prins |
| 2018-01-29 | Bumped version | 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...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
| zsloan |
| 2018-01-19 | Use elasticsearch rather than mysql for local accounts...* Register local accounts onto elasticsearch rather than mysql.
* Login from the accounts on elasticsearch
* Harmonise local and oauth2 logins to use the same code.
| Muriithi Frederick Muriuki |
| 2018-01-19 | Add OAuth2 login code for ORCID...* Add code to handle the login via ORCID
| Muriithi Frederick Muriuki |
| 2018-01-19 | Update configurations...* Have the authorisation URLs build up from the client id and client
secret values.
| Muriithi Frederick Muriuki |
| 2018-01-19 | Add code to enable OAuth2 login...* Add some code to handle the login if the user chooses to login via
GitHub or ORCID.
| Muriithi Frederick Muriuki |
| 2018-01-19 | Delay after save for indexing...* Elasticsearch need a short delay after adding document for it to index
the document for subsequent access.
| Muriithi Frederick Muriuki |
| 2018-01-19 | Add more configuration variables....* Add configurations for elasticsearch and github.
| Muriithi Frederick Muriuki |
| 2018-01-19 | Add save_user() function...* On successful login via OAuth2, save the details of the user in
elasticsearch store, to avoid hitting the external provider for the
basic details.
| Muriithi Frederick Muriuki |
| 2018-01-19 | Add elasticsearch module to the path...* Add some code to set up the path for the python-elasticsearch module.
| Muriithi Frederick Muriuki |
| 2018-01-12 | Add functions to help handle github login...* Add functions to help with the github OAuth2 login process
| Muriithi Frederick Muriuki |
| 2018-01-12 | Add elasticsearch_tools module...* Collect variables and functions for using the elasticsearch system in
a separate module.
| Muriithi Frederick Muriuki |
| 2018-01-12 | Add client_id and client_secret configurations...* Provide the OAuth2 client_id and client_secret values in configuration
variables.
| Muriithi Frederick Muriuki |
| 2018-01-10 | Add template elements for OAuth login...* Add html elements that will be used to prompt users to login with
either GitHub or ORCID.
| Muriithi Frederick Muriuki |
| 2018-01-10 | Add configuration variables for external services...* Add configuration variables for GitHub and ORCID which will be used by
the system to allow users to login.
| Muriithi Frederick Muriuki |
| 2018-01-04 | Merge pull request #270 from pjotrp/testing...Merge some older commits | zsloan |
| 2017-12-20 | Added submit_bnw even though it isn't working yet, just so views.py doesn't t... | zsloan |
| 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 proble......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
| zsloan |
| 2017-12-20 | VERSION | 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 |
| 2017-12-06 | Fixed drop-down group order | zsloan |
| 2017-12-04 | Fixed drop-down scripts to more appropriately deal with BXD300 groups (though......Added some header data to mapping output file
Fixed links in Network Group nodes/edges
| zsloan |
| 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...improved scatter plots | zsloan |
| 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 w......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
| zsloan |
| 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 chrom... | zsloan |
| 2017-09-21 | LOCO should work with GEMMA (when BIMBAM available), though I still need to d... | zsloan |
| 2017-09-14 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing | zsloan |
| 2017-09-14 | Committing current progress towards implementing LOCO for GEMMA, not done yet | zsloan |
| 2017-09-14 | Merge pull request #264 from pjotrp/testing..../bin/genenetwork2: add GEM_PATH for gemma-wrapper | zsloan |
| 2017-09-14 | ./bin/genenetwork2: add GEM_PATH for gemma-wrapper | Pjotr Prins |
| 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 |
