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2022-01-04guix.scm: Add guix.scm.Arun Isaac
* guix.scm: New file.
2022-01-04README: Fix typo.Arun Isaac
* README.md: Change clinians to clinicians.
2022-01-04bin: Stop execution on error.Arun Isaac
* bin/genenetwork2: Pass -e flag to sh.
2022-01-04bin: Set shebang to sh instead of bash.Arun Isaac
/bin/sh is present on Guix System and other distros while /bin/bash is present only on other distros. * bin/genenetwork2: Set shebang to sh instead of bash.
2022-01-04bin: Do not set environment variables set by guix shell.Arun Isaac
The Guix python package accepts GUIX_PYTHONPATH instead of PYTHONPATH. `guix shell' sets GI_TYPELIB_PATH, GIO_EXTRA_MODULES, GUIX_GTK3_PATH, GUIX_PYTHONPATH, PATH, R_LIB_SITE and XDG_DATA_DIRS when necessary. There is no need to set these environment variables explicitly. * bin/genenetwork2: Do not set GI_TYPELIB_PATH, GIO_EXTRA_MODULES, GUIX_GTK3_PATH, PATH, PYTHONPATH, R_LIBS_SITE and XDG_DATA_DIRS. * README.md [Development]: Remove paragraph on injecting python modules locally.
2022-01-04bin: Set GN2_PROFILE from GUIX_ENVIRONMENT.Arun Isaac
`guix shell' sets the profile path in an environment variable---GUIX_ENVIRONMENT. There is no need to pass it explicity as an input in GN2_PROFILE. * README.md: Remove all references to GN2_PROFILE. * bin/genenetwork2: Set GN2_PROFILE from GUIX_ENVIRONMENT. Do not check the value of GN2_PROFILE now that it is set automatically. Remove all references to GN2_PROFILE in example invocations.
2022-01-03Added something that should work as a 'universal' solution for decoding ↵zsloan
trait descriptions in search results, since there were still some traits with encoding issues
2022-01-03Fixed wrong logic for checking for null or empty string trait descriptions ↵zsloan
in search results
2021-12-23If phenotype metadata is cached, authenticate for those traits (otherwise ↵zsloan
authentication happens in create_trait at line 105)
2021-12-23Set new_traits_metadata so caching is used (previously was always an empty dict)zsloan
2021-12-20This should fix ProbeSet trait descriptions in the search results, which ↵zsloan
previousluy weren't showing the proper description
2021-12-17Some updates to the DOL genotypes conversion scriptzsloan
2021-12-15Edited html for index pagezsloan
2021-12-14Removed min-width from container div, since it seems to have preventd ↵zsloan
horizontal scrolling when the window is small
2021-12-14Includes dataset name when creating SimpleNamespace dataset_ob, since it's ↵zsloan
needed during authentication
2021-12-13Fixes issue that caused LRS searches that specify position to not work ↵zsloan
properly; the queries had to be changed after integrating the change that also pulls the Max LRS info in the original query
2021-12-13pep8 formattingAlexander Kabui
2021-12-13modify endpoint for test wgcnaAlexander Kabui
2021-12-13modify template to show error generatedAlexander Kabui
2021-12-13handle connection error & other exceptionsAlexander Kabui
2021-12-13parse powers to use from form dataAlexander Kabui
2021-12-13add new endpoint:for test gn3 wgcnaAlexander Kabui
2021-12-07Made some changes to the index page HTMLArthur Centeno
2021-12-03Add mapping_scale to mapping_results.html forum inputszsloan
2021-12-03Properly set start position for cM mapping, to prevent overflow + remove ↵zsloan
some unnecessary commented out lines
2021-12-03Make sure mapping_scale is always physic when using GEMMAzsloan
2021-12-03Prevent points prior to the X axis from being displayed in mapping figure ↵zsloan
when zoomed into a sub-range on a chromosome
2021-12-02Gave the twitter feed div a background color to make it more visually ↵zsloan
distinct from surrounding content + removed top margin from ul elements that was added by uikit
2021-12-02Moved the UIkit CSS from base.html to index_page.html (btw Arthur, never add ↵zsloan
CSS files to base.html - it makes their styling apply to every single GN page)
2021-12-02Removed colons from Links headers and removed margin-bottom for H2 elementszsloan
2021-12-02Made Affiliates a subcategory of Linkszsloan
2021-12-02Changed index pagee HTML to be more consistent, adding indentation, removed ↵zsloan
commented out HTML
2021-12-02Increased min-width for showtrait-main-div to prevent mapping description ↵zsloan
text from overflowing
2021-12-02Increased mid-width for container element for mapping figure to prevent it ↵zsloan
from shrinking when the browser window is smaller (which prevents the links, etc, from overlapping properly with the image)
2021-12-01Figure out that we are using the wrong db_webqtl_s!Pjotr Prins
2021-12-01Introduce GN3_PYTHONPATH environment variablePjotr Prins
2021-11-27display_files.html: Place "approved" before "rejected" sectionBonfaceKilz
2021-11-25wqflask: metadata_edits: Support deletions and insertions from csvBonfaceKilz
2021-11-25Remove useless commentBonfaceKilz
2021-11-25Delete noisy loggingBonfaceKilz
2021-11-24Merge pull request #624 from Alexanderlacuna/feature/correlation-optimization2BonfaceKilz
Feature/correlation optimization2
2021-11-23wqflask: metadata_edits: Sort files from most recentBonfaceKilz
2021-11-23wqflask: metadata_edits: Remove "\n\n" check with something elseBonfaceKilz
In excel, "\n\n" is replaced with ",,,," and this leads to a value error.
2021-11-23wqflask: views: Make error messages properly formattedBonfaceKilz
2021-11-23fix for overwriting fileAlexander Kabui
2021-11-23resolve merge conflictsAlexander Kabui
2021-11-23pep8 formatting remove dead variablesAlexander Kabui
2021-11-23merge commit :added some logic that takes into account corr_sample_group ↵Alexander Kabui
when determining which samples to use when getting sample_data
2021-11-19Feature/fix wgcna api path (#630)Alexander Kabui
* add correct path gn3 api endpoint * remove ununsed dependencies;replace libraries with ones from guix * replace xterm cdn libs
2021-11-18Merge pull request #635 from acenteno/testingzsloan
Testing
generated by cgit v1.2.3 (git 2.44.0) at 2024-11-22 17:54:26 +0000