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2024-01-02Install static directory recursively.Arun Isaac
2024-01-02Fix base directory name in manifest.Arun Isaac
Earlier, we renamed the base directory from wqflask to gn2. Do likewise in the manifest.
2024-01-02Move default settings into gn2 module.Arun Isaac
2024-01-02Do not read version from separate file.Arun Isaac
There is not much use having a separate version file. Besides, not having a separate file saves us all the trouble of dealing with the path to that file.
2024-01-02Consistently use GN_VERSION from app config.Arun Isaac
GN_VERSION is set in the configuration file and read into the app config dictionary. Use that instead of re-reading from the etc/VERSION file. * gn2/utility/tools.py (gn_version): Delete function. (GN_VERSION): Delete variable. * gn2/wqflask/metadata_edits.py (display_phenotype_metadata, display_probeset_metadata, show_history): Use GN_VERSION in app config. * gn2/wqflask/views.py: Do not import GN_VERSION from gn2.utility.tools. (handle_generic_exceptions, index_page.__render__, submit_trait_form): Use GN_VERSION in app config.
2024-01-02merge changesAlexander_Kabui
2024-01-02add loading spinner for form submissionAlexander_Kabui
2024-01-02fix issue for chromium browsers:form submitting twiceAlexander_Kabui
2023-12-30setup.py: Use find_packages.Arun Isaac
2023-12-30Namespace mock paths under gn2.Arun Isaac
2023-12-29Correct path to etc/VERSION.Arun Isaac
2023-12-29Remove only up to -c in bin/genenetwork2.Arun Isaac
For example, in bin/genenetwork2 etc/default_settings.py -c -m pytest, remove only up to -c.
2023-12-29Namespace all modules under gn2.Arun Isaac
We move all modules under a gn2 directory. This is important for "correct" packaging and deployment as a Guix service.
2023-12-29use gn-serverl-url for gn3 apiAlexander_Kabui
2023-12-23use gn3 local urlAlexander_Kabui
2023-12-22Merge pull request #823 from genenetwork/feature/gn-llm-uiAlexander Kabui
Feature/gn llm UI
2023-12-22guix: Do not fix version of package.Arun Isaac
2023-12-22guix: Clear up imports.Arun Isaac
2023-12-21Add option to invert X and Y axes for scatterplotzsloan
2023-12-21ui code refactoringAlexander_Kabui
2023-12-20Add missing programmers + margins to credits pagezsloan
2023-12-20Add option to Show More/Less for trait page descriptions when the ↵zsloan
description is more than 100 characters
2023-12-20code refactoringAlexander_Kabui
2023-12-20code formatting fixesAlexander_Kabui
2023-12-20init gnqna ui implementationAlexander_Kabui
2023-12-20add template handler for gngnaAlexander_Kabui
2023-12-20add gnqna search form for home pageAlexander_Kabui
2023-12-18Display empty collectionsFrederick Muriuki Muriithi
The count in the badge includes collections that are empty. This commit fixes the UI to display empty collections too.
2023-12-18Fix typo.Frederick Muriuki Muriithi
2023-12-15Increase width of Location selection for correlationszsloan
2023-12-15Make correlation and mapping CSS for trait page the samezsloan
2023-12-15Set min-width for show_trait page container div to prevent buttons from ↵zsloan
looking weird with super narrow screens
2023-12-15Update to more correct Xapian Search Queries linkzsloan
2023-12-13Update Global Search help linkzsloan
2023-12-07Move asterisk in mapping options to prevent overlapping with the Copy and ↵zsloan
Share link
2023-12-07Fix bug when viewing individual chromosomes for non-mouse/rat specieszsloan
2023-12-07Make the font-size for block-quotes smaller compared to the default.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-12-07Fix typo.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-12-07Add link to GN1 for quick comparison.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-12-07Update how the title is constructed.Munyoki Kilyungi
* wqflask/wqflask/templates/metadata/dataset.html: In order of priority, display: title, label, altLabel. Otherwise, you can possibly have the GN Accession Id forming the title of this page. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-12-07Update datasets page with updated RDF json-ld result.Munyoki Kilyungi
* wqflask/wqflask/templates/metadata/dataset.html: Minor updates. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-12-05Send the GN3 API server URI as configured for GN2Frederick Muriuki Muriithi
2023-12-05Update URIs to the new GN-AUTH urisFrederick Muriuki Muriithi
The javascript was still using the GN3 URIs from when auth was done in GN3. This commit updates the code to the new URI paths.
2023-12-05Remove user-roles fetching statementFrederick Muriuki Muriithi
Remove the code fetching all the user roles, since they are not used.
2023-11-30Remove duplicate month field in Phenotypes page.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-11-30Fix dataset page links in Phenotypes UI page.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-11-30Handle display for unpublished dataMunyoki Kilyungi
Example: http://cd.genenetwork.org/phenotypes/BXD_17019 Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-11-30Add "Peak Location" in phenotypes display.Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-11-30Refine display of publication details in phenotype template.Munyoki Kilyungi
* wqflask/wqflask/templates/phenotype.html: Use "metadata.references" to fetch publication details. Replace LRS value with LOD Score ("Peak -logP"). Rename "Additive" -> "Effect Size." Replace "Title" with "Publication." Use "ANSI/NISO Z39.29-2005(R2010)" format for displaying publications details. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-11-30Use correct field to fetch the additive value.Munyoki Kilyungi
* wqflask/wqflask/templates/phenotype.html: Use the correct field to fetch the additive value. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
generated by cgit v1.2.3 (git 2.44.0) at 2024-11-23 13:47:57 +0000