diff options
| -rw-r--r-- | topics/data-uploads/editing-data.gmi | 58 |
1 files changed, 57 insertions, 1 deletions
diff --git a/topics/data-uploads/editing-data.gmi b/topics/data-uploads/editing-data.gmi index 01144a0..83ab4b4 100644 --- a/topics/data-uploads/editing-data.gmi +++ b/topics/data-uploads/editing-data.gmi @@ -69,4 +69,60 @@ That needs to be improved. - Fixed excel issue described here: -=> https://github.com/genenetwork/genenetwork2/compare/testing...BonfaceKilz:bug/fix-excel-adding-new-line?expand=1
\ No newline at end of file +=> https://github.com/genenetwork/genenetwork2/compare/testing...BonfaceKilz:bug/fix-excel-adding-new-line?expand=1 + +### Wed 22 Dec 2021 + +Consider the case where a user deletes, updates, or modifies data from +Genenetwork using the csv download the got from the data-upload page. +In the event they do not approve the data, and they upload that csv +file again, we have a case in gn2 where data needs to be deleted, +inserted, or modified twice. In the case of deletions, or insertions, +an error will be generated because you cannot remove or insert that +same data twice. Also, the count that's displayed as a flash message +will not be correct (visually) since-- at the time of this writing-- +we count the number of edits from a CSV file. A working patch will be +sent later today(or tomorrow). + +Also, the GN2 build is not working. With that in mind below I outline +how I've plugged in pudb, inspired by jgarte's demo: + +=> https://git.genenetwork.org/jgart/qc_crlf_demo + +- First, in *wqflask/runserver*, I removed Flask DebugToolbar(this + somehow made Flask crash, and I haven't investigated it). Here is + how the diff looks: + +``` +modified wqflask/runserver.py +@@ -23,9 +23,7 @@ app_config() + werkzeug_logger = logging.getLogger('werkzeug') + + if WEBSERVER_MODE == 'DEBUG': +- from flask_debugtoolbar import DebugToolbarExtension + app.debug = True +- toolbar = DebugToolbarExtension(app) + app.run(host='0.0.0.0', + port=SERVER_PORT, + debug=True, + +``` + +- As a work-around for the failing gn2 build, install pudb in it's own profile + +``` +guix install pudb -p ~/opt/pudb +``` + +- Add pudb to your python path in *bin/genenetwork2* as show in this + diff: + +``` +-# We may change this one: +-export PYTHONPATH=$PYTHON_GN_PATH:$GN2_BASE_DIR/wqflask:$GN3_PYTHONPATH:$PYTHONPATH ++# We may change this one: ++export PYTHONPATH=$GN2_BASE_DIR/wqflask:/home/bonface/opt/pudb/lib/python3.9/site-packages/:/home/bonface/projects/genenetwork3:$PYTHONPATH +``` + +- To use pudb, just stick `import pudb; pu.db` wherever you fancy. + Happy debugging! |