| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2022-05-10 | Fix the way the collection name is stored in the form | zsloan | |
| 2022-05-10 | Add collection export function/endpoint | zsloan | |
| 2022-05-10 | Change export_search_results_csv to export_traits_csv since it's more accurate | zsloan | |
| 2022-05-10 | Add JS for submitting collection export | zsloan | |
| Also refactor the way the exports and BNW submission are done | |||
| 2022-05-10 | Add button for new collection export | zsloan | |
| 2022-05-06 | Compute pcorrs with selected target traits | Frederick Muriuki Muriithi | |
| Modify the code to request computation of partial correlations with selected traits rather than a complete dataset. | |||
| 2022-05-06 | Add UI for partial correlation against selected targets | Frederick Muriuki Muriithi | |
| 2022-05-06 | Make the results table dataTable class | Frederick Muriuki Muriithi | |
| 2022-05-06 | Display the trait name in the header during edits | BonfaceKilz | |
| 2022-05-06 | Move "Update History" to it's own page | BonfaceKilz | |
| * wqflask/wqflask/metadata_edits.py (edit_phenotype): Move the logic for fetching the diff data from here to... (show_history): ... here. * wqflask/wqflask/templates/edit_phenotype.html: Move html section for displaying recent edits from here to ... * wqflask/wqflask/templates/edit_history.html: ... here. | |||
| 2022-05-06 | Align the submit button to the left | BonfaceKilz | |
| 2022-05-06 | Remove the "Reset" button | BonfaceKilz | |
| 2022-05-06 | Re-order the form fields to match the APA citation style | BonfaceKilz | |
| 2022-05-06 | Fix typos; "Pre" and "Post", as prefixes, aren't standalone words | BonfaceKilz | |
| 2022-05-06 | Remove the "Sequence" form field | BonfaceKilz | |
| 2022-05-06 | Adjust the row-size of the "Authors" field to 3 | BonfaceKilz | |
| 2022-05-06 | Shrink the rows of the "Volume" field to 1 | BonfaceKilz | |
| 2022-05-05 | Change mm9 to mm10 for creating the UCSC Genome Browser link | zsloan | |
| 2022-05-04 | Add text-field for the "Volume" of a Publication | BonfaceKilz | |
| 2022-05-03 | Replace references of "publish_xref.pubmed_id" with "publication.id" | BonfaceKilz | |
| See: https://issues.genenetwork.org/issues/edit-metadata-bugs.html * wqflask/wqflask/metadata_edits (edit_phenotype): When diffing, should there be a null, use a "" during page display. Also, use the "publication.id_" instead of "publication.pubmed_id" when updating a publication. * wqflask/wqflask/templates/edit_phenotype.html: In the HTML form, use values of "publication" instead of "publish_xref" when referring to a publication. | |||
| 2022-05-03 | Put contents into "container" divs to get similar styling | Frederick Muriuki Muriithi | |
| Put the contents of the partial correlations pages between the <div class="container"></div> tags to take advantage of the existing styling of the content, especially regarding margins and paddings. | |||
| 2022-04-30 | Add tool-button-container class to tool button div in correlation results | zsloan | |
| 2022-04-29 | Add non-CaseAttribute allowable headers | zsloan | |
| 2022-04-29 | Set headers since it seems to have not been set before getting referenced | zsloan | |
| 2022-04-26 | Add left float to permutation histogram so it appears correctly | zsloan | |
| relative to other figures | |||
| 2022-04-21 | Change searches to interpret any string starting with c/C as chromosome | zsloan | |
| Previously search terms with chromosome as a parameter would only search for Chr or chr specifically; this changes them to detect any string starting with a C/c (so it would detect, for example, 'ch4' as chromosome 4) | |||
| 2022-04-21 | Fix error caused by traits without LRS values on collection page | zsloan | |
| 2022-04-21 | Fix issue with collection page export | zsloan | |
| There were some extra spaces/newline characters in the checkbox table cell that were causing the javascript fetching trait info to not work correctly (it was trying to select the first item in the table cell, which in this case was the space/newline characters instead of the checkbox itself). Removing those characters seem to fix the export. | |||
| 2022-04-20 | Fix issue where mapping figure wasn't horizontally scrolling when the | zsloan | |
| window is less wide than it | |||
| 2022-04-20 | Remove extra template bracket | zsloan | |
| 2022-04-19 | Add scatterplot link for additive effect in mapping results | zsloan | |
| 2022-04-18 | Add BXD-Micturition to BXD-equivalent groups | zsloan | |
| This is necessary for the coloring of the gene band rectangles to work correctly (because a query it runs needs the BXD strain ID) | |||
| 2022-04-14 | Adjust mapping results page to prevent the mapping options at the top of | zsloan | |
| the page from being too far to the right | |||
| 2022-04-14 | Add group code to loading pages when applicable | zsloan | |
| This adds the group code to phenotype traits on loading pages, and also sets the group code as an attribute of the dataset.group class. | |||
| 2022-04-14 | Increase tool-button-container min-width | zsloan | |
| This increases the min-width for the search/collection page tool button container, since previously the Partial Correlation button would get shoved below when the window was too narrow. It needed to be increased to account for that button. | |||
| 2022-04-14 | wqflask: Mock db connection when fetching case attributes | BonfaceKilz | |
| * wqflask/tests/integration/wqflask/test_metadata_edits.py (test_show_case_attributes): Mock "database_connection". Fixes this failing test: <https://ci.genenetwork.org/jobs/genenetwork2/223> | |||
| 2022-04-14 | Register the port in the app configs | Frederick Muriuki Muriithi | |
| 2022-04-14 | Provide db port when present | Frederick Muriuki Muriithi | |
| Sometimes the system uses a port to connect to the database, rather than a socket, so if the port is present, provide it as part of the connection arguments. | |||
| 2022-04-14 | Use `MySQLdb.connect` rather than `MySQLdb.Connect` | Frederick Muriuki Muriithi | |
| 2022-04-14 | Debug: Add logging to track db connection creation and stoppingdebug-too-many-connections-error | Frederick Muriuki Muriithi | |
| As part of debugging the "Too many connections" error to the database, this commit adds logging to track the creation of connections to the database, and their eventual closing. | |||
| 2022-04-12 | Replace get_allowable_sampledata_headers with get_case_attributes | BonfaceKilz | |
| * wqflask/wqflask/metadata_edits.py: Remove "get_allowable_sampledata_headers" import. (display_phenotype_metadata): Use "get_case_attributes" to fetch all the allowable case attributes. | |||
| 2022-04-12 | List out case-attrs from database; and add link to case-attr page | BonfaceKilz | |
| 2022-04-12 | Don't create db engine for static files | Frederick Muriuki Muriithi | |
| There is no need to create a database engine for requests for static files like CSS files and javascript files. This commit checks for and skips the creation of the engine for such requests. | |||
| 2022-04-12 | Remove unused database code | Frederick Muriuki Muriithi | |
| Remove code for connecting to the database that is not actually used in the application in any sensible form. | |||
| 2022-04-07 | Add submit buttons to the top of the edit page | BonfaceKilz | |
| 2022-04-07 | Fix "Pubmed" spelling to "PubMed" | BonfaceKilz | |
| 2022-04-07 | Add left space to content by making the "form" a container | BonfaceKilz | |
| 2022-04-07 | Remove ":" after a header | BonfaceKilz | |
| 2022-04-07 | Make case-attribute table a "data table" | BonfaceKilz | |
| 2022-04-07 | Pass missing "conn" when getting case attributes | BonfaceKilz | |
| * wqflask/wqflask/metadata_edits.py (show_case_attribute_columns): Create a connection and pass it to "get_case_attributes". | |||
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| GeneNetwork (2nd generation) |
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