| Age | Commit message (Expand) | Author |
|---|
| 2022-08-12 | Integrate rust correlations. Deduplicate similar code....- Use rust correlations rather than the slower python one
- Remove code duplicated in the
`wqflask/wqflask/correlation/rust_correlation.py` module within the
`compute_correlation_rust` function.
| Frederick Muriuki Muriithi |
| 2022-08-11 | Add data-trait-info attribute to checkboxes on search results page...Currently there's a separate trait_info_str function in
search_results.py, because search_results.py doesn't build the trait
objects (so it can't use the one in collect.py unless I change that to
accept traits as either a GeneralTrait class or dict - which might be
better, I'm not sure)
| zsloan |
| 2022-08-09 | Display the probeset name in the editing form...* wqflask/wqflask/templates/edit_probeset.html: Add probeset.name to
the h1 tag.
| Munyoki Kilyungi |
| 2022-08-09 | Make edit_probeset.html similar to corresponding phenotype page...* wqflask/wqflask/templates/edit_probeset.html: Remove "reset" button.
Make button green. Move form element into the "container" div. Add
"container" class to form. Left justify labels, and the button.
Remove ":" from labels.
| Munyoki Kilyungi |
| 2022-08-09 | Delete "diff" section...For both the edit phenotype and probeset pages, the diffs can be
viewed from history.html.
* wqflask/wqflask/templates/edit_phenotype.html: Delete "diffs"
section.
* wqflask/wqflask/templates/edit_probeset.html: Ditto.
| Munyoki Kilyungi |
| 2022-08-09 | Remove "diff" logic from edit_probeset...* wqflask/wqflask/metadata_edits.py (edit_probeset): Delete logic for
fetching diff. Move that...
(show_history): ... here
* wqflask/wqflask/templates/edit_probeset.html: Update template to
show diffs in a history.html. Reposition and rename the h1 tag of
this page.
| Munyoki Kilyungi |
| 2022-08-09 | Update h1 title of history page...ATM, we don't show the name of the phenotype whose history we are
changing. That may be updated in a future commit.
* wqflask/wqflask/templates/edit_history.html: Reword h1 and remove
"{{}}" which results in a jinja error.
| Munyoki Kilyungi |
| 2022-08-09 | Fix circular import issue | Frederick Muriuki Muriithi |
| 2022-08-09 | Integrate rust correlation for "sample" correlation selection...Integrate the use of the rust code to compute the correlations for the
"sample" correlation selection.
| Frederick Muriuki Muriithi |
| 2022-08-09 | Pass trait values (X) as list not string...The trait values (X values) are converted to JSON within the
`run_correlation` call. Since JSON has the ability to represent lists
of objects, there is no point for the added conversion to and from
strings.
| Frederick Muriuki Muriithi |
| 2022-08-08 | remove unnessary append to list | Alexander_Kabui |
| 2022-08-08 | remove test;test is redundant | Alexander_Kabui |
| 2022-08-08 | tests refactoring | Alexander_Kabui |
| 2022-08-05 | Include partial_correlations.js in the search page template | zsloan |
| 2022-08-01 | Remove console logs from scatterplot.js | zsloan |
| 2022-08-01 | Change Make Default button to Save Settings | zsloan |
| 2022-08-01 | Add date/time to trait page export | zsloan |
| 2022-08-01 | Add header/description to partial correlation page | zsloan |
| 2022-08-01 | Add index column and phenotype group code to trait export | zsloan |
| 2022-07-28 | Use external process to compute sample correlations | Frederick Muriuki Muriithi |
| 2022-07-27 | Disable PCA when fewer than 3 traits | zsloan |
| 2022-07-27 | Change some text/formatting on Correlation Matrix page | zsloan |
| 2022-07-27 | Change capitalization on index page | zsloan |
| 2022-07-27 | Change some text/formatting for the Scree Plot | zsloan |
| 2022-07-27 | Change search result text/formatting | zsloan |
| 2022-07-27 | Change formatting for search term + add line break in description text | zsloan |
| 2022-07-25 | new file module for preprocessing input | Alexander_Kabui |
| 2022-07-25 | add test route | Alexander_Kabui |
| 2022-07-25 | enable test route | Alexander_Kabui |
| 2022-07-25 | Fix BNW link | zsloan |
| 2022-07-25 | Remove Comparison Bar Chart button | zsloan |
| 2022-07-25 | Change Interval Analyst genome browser link to use mm10 instead of mm9 | zsloan |
| 2022-07-25 | Return config in app.config or None...Update the code to return the setting already set up in the app.config
dictionary if it exists or None if it does not exist.
| Frederick Muriuki Muriithi |
| 2022-07-14 | Remove column toggle JS from show_trait.html since it's in initialize_show_tr... | zsloan |
| 2022-07-14 | Call DataTable() on the table id instead of referring to the_table; not...sure why this is necessary, but the search doesn't work otherwise
| zsloan |
| 2022-07-12 | Include genotypes for F1s/reference/non-reference strains when fetching...sample data for genotype traits
| zsloan |
| 2022-07-11 | Increase min-width for div containing tool buttons on search page | zsloan |
| 2022-07-08 | Add python for exporting case attributes | zsloan |
| 2022-07-08 | Add JS for exporting case attributes (sample metadata) | zsloan |
| 2022-07-04 | wqflask: Remove DebugToolbarExtension...This functionality, at least how we use it, is already provided
natively in python's pdb. Should someone need this, they can add it
manually.
* wqflask/runserver.py (app_config): Remove "flask_debugtoolbar"
import and instantiation.
* wqflask/utility/startup_config.py (app_config): Ditto.
| BonfaceKilz |
| 2022-07-04 | wqflask: use the raw user string if value is non-existent in redis...* wqflask/wqflask/metadata_edits.py (_get_diffs): If a user---whose
value is extracted from Redis and encoded in the file name---doesn't
exist in Redis, use the raw string extracted from the file.
| BonfaceKilz |
| 2022-07-04 | wqflask: Use a map over a tuple when fetching case-attributes...* wqflask/wqflask/metadata_edits.py (update_phenotype): Replace old
"get_case_attributes" function call which returned a dict with the new
updated version that returns a tuple.
| BonfaceKilz |
| 2022-06-21 | wqflask: views: Delete noisy logging and dead code...- Remove commented out code-blocks
- Remove calls with this pattern:
logger.info("Sending ...")
logger.info(request.url)
Should you want to inspect the local context of an
environment when troubleshooting, set a
breakpoint() and inspect the environment. To view
everything in the local context, use "pp
locals()"; and to view everything in the global
context, use "pp globals()".
| BonfaceKilz |
| 2022-06-20 | Simplify partial correlation method choices...- Have only `Pearson's r` and `Spearman's rho` as the available
choices for the partial correlations.
| Frederick Muriuki Muriithi |
| 2022-06-15 | templates: base: Update GN2 footer...* wqflask/wqflask/templates/base: Remove links to non-functioning
mailing list. Remove link to "#genenetwork" channel that isn't currently
owned/moderated.
Co-authored-by: Ethan Willis <elwillis1@gmail.com>
| BonfaceKilz |
| 2022-06-13 | Check chromosome for 'Un' in search results and print N/A in such cases | zsloan |
| 2022-06-13 | Check for chromosome of 'Un' and print location as 'Not available' in such cases | zsloan |
| 2022-06-13 | Increase width threshold for using scroller, to prevent issue with blue lines... | zsloan |
| 2022-06-13 | Limit search result descriptions to 500 characters | zsloan |
| 2022-06-13 | Add |safe to ensure HTML entites are correctly escaped for trait descriptions | zsloan |
