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2020-08-18Wrap print statements in parenthesesBonfaceKilz
2020-08-18Fix malformed docstring...* wqflask/utility/Plot.py: Update docstring. BonfaceKilz
2020-08-08Add draw_open_polygon() utility...* wqflask/utility/pillow_utils.py: New method. Muriithi Frederick Muriuki
2020-08-08Use draw_rotated_text()...Use the new draw_rotated_text() function to draw the text rotated as was formerly done. * wqflask/utility/Plot.py (plotBar): Use draw_rotated_text(). * wqflask/wqflask/marker_regression/display_mapping_results.py: (DisplayMappingResults) Use draw_rotated_text(). Muriithi Frederick Muriuki
2020-08-08Create new utility module for drawing...* wqflask/utility/pillow_utils.py: Create a module to hold some utility functions for drawing with Pillow. Initialise the module with a function to draw rotated text. Muriithi Frederick Muriuki
2020-08-08Fix font paths...* wqflask/utility/Plot.py: Update font paths. * wqflask/fonts/ttf: Update font files. Muriithi Frederick Muriuki
2020-08-08Migrate code from Piddle to Pillow...* wqflask/wqflask/marker_regression/display_mapping_results.py: Add font files (DisplayMappingResults): Update the code from the Piddle way of things to the Pillow way of things, for example, replace: - pid.drawRect(...) with im_drawer.rectangle(...) - pid.drawString(...) with im_drawer.text(...) - pid.drawPolygon(...) with im_drawer.polygon(...) etc. * wqflask/utility/Plot.py: Migrate code from the older, unsupported Piddle to the newer Pillow library. Muriithi Frederick Muriuki
2020-07-29Fixed error that occured for new resources in check_admin...* wqflask/utility/authentication_tools.py: the code forgot to get resource_info when a resource wasn't in Redis yet, causing an error when it was referenced, so I added a line getting the resource info (and also a couple comments for other lines related to authentication) zsloan
2020-07-25The variable is never defined, so let's default to "none"Pjotr Prins
2020-07-24Merge pull request #409 from BonfaceKilz/Build/add-tests...Build/add testszsloan
2020-07-24Revert "Add work-around for failed imports in unittest"...This reverts commit d5e87fa6fe7546b46790f512d984a5501223082f. BonfaceKilz
2020-07-24Add work-around for failed imports in unittest...* wqflask/utility/tools.py: Unittests will use `from wqflask.wqflask import app` and the gn2 script will use `from wqflask import app` BonfaceKilz
2020-07-24Apply autopep-8...* wqflask/utility/formatting.py: apply it BonfaceKilz
2020-07-24Add zero to num_repr dictionary...* wqflask/utility/formatting.py(numify): Update `num_repr` to have a zero BonfaceKilz
2020-07-24Remove redundant variable...* wqflask/utility/corr_result_helpers.py(normalize_values_with_values): Remove `num_overlap` BonfaceKilz
2020-07-24Remove unused assert...* wqflask/utility/corr_result_helpers.py(normalize_values): At no one point will that assert be hit BonfaceKilz
2020-07-24Remove unused doc-tests...* wqflask/utility/corr_result_helpers.py: Delete doc-test BonfaceKilz
2020-07-24Simplify normalize_values...* wqflask/utility/corr_result_helpers.py(normalize_values): Replace loop with zip form BonfaceKilz
2020-07-24Remove unused doc-tests...* wqflask/utility/chunks.py: Remove test code from module BonfaceKilz
2020-07-24Revert "Add work-around for failed imports in unittest"...This reverts commit d5e87fa6fe7546b46790f512d984a5501223082f. BonfaceKilz
2020-07-24Add work-around for failed imports in unittest...* wqflask/utility/tools.py: Unittests will use `from wqflask.wqflask import app` and the gn2 script will use `from wqflask import app` BonfaceKilz
2020-07-22It should add new resources to Redis automatically nowzsloan
2020-07-16Expose elastic-search variables for tests to passBonfaceKilz
2020-07-08Removed remaining unused references to the old qtlreaperzsloan
2020-07-06Fixed some of the logic with how traits are authenticated to avoid situation ...zsloan
2020-06-24Temporary partial fix to issue of resources without info; need to add somethi...zsloan
2020-06-20Fixed ports for proxy (though I need to add the port to global variables) and...zsloan
2020-06-20Added some admin functionality and fixed issue with temp traitszsloan
2020-06-17A user's id is now set as a parameter if it doesn't already existauthentication_testzsloan
2020-06-17Adding all the authentication stuffzsloan
2020-06-05Commiting other current group/resource management code, plus the new fileszsloan
2020-06-04Really should have split this into many more commits:...- Now use proxy to pull trait data and hide traits/results that the user doesn't have view permission for - Created a factory method for creating trait ob so it can return None when user doesn't have view permissions (this is why such a large number of files are changed) - Added metadata to permutation export - Added current group management code - Added fixed password verification e-mail code zsloan
2020-05-28Added lines calling proxy for publish datasets + added some resource redis qu...zsloan
2020-05-12Merging Danny's changes and Bonface's changes to js importszsloan
2020-05-12Added change for F2s in r/qtl and fixed minor issue in save_user in redis_toolszsloan
2020-05-07Committing current progress on group manager + a minor fix in dataset.pyzsloan
2020-05-06Commiting a few minor changes plus returning rqtl_mapping.py to the same as o...zsloan
2020-05-06Replace CSS dependencies for datatablesBonfaceKilz
2020-04-26Merge master and testingmasterPjotr Prins
2020-04-24Replaced hard-coded instances of GN2 urls with ones pulled from settings filezsloan
2020-04-22Fixed a variety of issues related to users registering and logging in...GN2 should now work when Redis is empty zsloan
2020-04-16Many changes, including:...- Added permutation strata option for R/qtl - Made a variety of aesthetic changes to collections-related pages - Made a variety of aesthetic changes to the multi-trait tool options on the search result and correlation pages - Made some functional changes to collections that prevent duplicate traits and ensure new traits are at the top - The "Default Collection" is now always at the bottom of the collection list and renamed to "Your Default Collection" zsloan
2020-04-03Added option to select cofactors from collection for R/qtl...Fixed some issues with displaying the R/qtl results from the RData HET3-ITP dataa zsloan
2020-03-27Added integration for using RData files with R/qtl, plus some other changes t...zsloan
2020-03-10Fixed issue that caused some problems when verifying hmaczsloan
2020-03-09I think this should complete consolidating all the collections code.zsloan
2020-03-03Missed one more reference in helper_functionszsloan
2020-03-03was missing a couple files in last commitzsloan
2020-03-03Refactored all the anonymous (not logged-in) user stuff so that both logged-i...zsloan
2020-02-12Fixed issue that broke some logins with the new redis user codezsloan
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