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rki-mf1 / covsonar

A database-driven system for handling genomic sequences of SARS-CoV-2 and screening genomic profiles.
GNU General Public License v3.0
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Update of a sequence identical to another deletes mutation profile of the other sequence #80

Closed paulwolk closed 1 year ago

paulwolk commented 1 year ago

1) Have to exactly identical sequences <1> & <2> with mutations in the database. 2) Sequence <2> gets an update and has a new sequence, so I add it with the "force" flag to overwrite the old sequence. 3) <2> is correctly updated now, but <1> has an empty mutations field.

This is for the current version 1.1.8.

paulwolk commented 1 year ago

Same behaviour for deleting. If you have 2 equal sequences and delete one of them, the second (remaining) one has an empty mutation profile.

MarieLataretu commented 1 year ago

It seems like the bug was introduced after version 1.1.7

git clone https://github.com/rki-mf1/covsonar.git
cd covsonar
sonar.py --version
# 1.1.8
# bug
git clone -b v1.1.7 https://github.com/rki-mf1/covsonar.git
cd covsonar
sonar.py --version
# 1.1.7
# no bug
stephan-fuchs commented 1 year ago

We have resolved the issue you reported and incorporated the fix into our latest Alpha Version of covSonar 2. You can find the updated version at https://github.com/rki-mf1/covsonar/tree/dev/covsonar2-alpha. We encourage you to try it out and let us know your feedback. Thank you for your support and contribution to the development of covSonar.

matthuska commented 1 year ago

covsonar 1 is still being used and this is still not resolved in the latest covsonar 1.x release. I'm reopening this and will write a PR with a fix.