Skip to content

Issues: widdowquinn/pyani

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

46 Open 208 Closed
46 Open 208 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt click/return to exclude labels
or ⇧ click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Self-vs-self sim-error values of 1 rather than 0
#438 opened Oct 8, 2024 by peterjc
segment fault
#430 opened Jul 10, 2024 by lingc31415
1
Installation issues
#429 opened May 4, 2024 by TommyH-Tran
3
ZeroDivisionError: float division by zero question how can I do this? why does it do that? where can I get this? etc.
#428 opened May 2, 2024 by ivaneskos
3
Running --graphics after analysis
#427 opened Apr 19, 2024 by artfet
1
add pyani dnadiff subcommand enhancement something we'd like pyani to do that it doesn't already
#424 opened Mar 19, 2024 by kiepczi 0.3.1
@widdowquinn @kiepczi
5
Add separate columns for subject and query alignment lengths in --run_results
#422 opened Feb 23, 2024 by kiepczi
@kiepczi
23
ValueError in pyani plot using pyani 0.3.0-alpha
#418 opened Jun 17, 2023 by jmoltzau
Type strain vs X of genomes enhancement something we'd like pyani to do that it doesn't already question how can I do this? why does it do that? where can I get this? etc.
#417 opened Jun 7, 2023 by nikolomics
1
ERROR: This has possibly been a NUCmer run failure, please investigate ERROR: NoneType: None
#416 opened Jun 3, 2023 by Yuanzhou-W
3
Untested code in fastani.py VERSION_3 issues relating to version 0.3.x of pyani
#405 opened Jun 29, 2022 by baileythegreen
2
1
test_cli_parsing() tests fail when pytest is run with no flags bug something isn't working how it should interface issues related to how the user tells pyani to do something tests issues relating to tests
#402 opened Jun 9, 2022 by baileythegreen 0.3.0
1
1
Rationalise documentation documentation documentation is unclear or incomplete
#392 opened Apr 27, 2022 by widdowquinn 0.3.0
@widdowquinn @baileythegreen
2
Use alembic to manage SQLite schema changes? enhancement something we'd like pyani to do that it doesn't already
#378 opened Jan 28, 2022 by widdowquinn 0.3.0
1
@widdowquinn @baileythegreen
41
ValueError: zero-size array to reduction operation minimum which has no identity bug something isn't working how it should
#371 opened Jan 12, 2022 by neelam19051 0.3.0
@widdowquinn
9
Add tests for --recovery mode tests issues relating to tests
#362 opened Nov 30, 2021 by baileythegreen 0.3.1
Add a --dry-run flag, generally enhancement something we'd like pyani to do that it doesn't already interface issues related to how the user tells pyani to do something
#343 opened Oct 1, 2021 by baileythegreen 0.3.1
8
Use --noextend in NUCmer as a rule bug something isn't working how it should method the issue relates to how results are calculated VERSION_3 issues relating to version 0.3.x of pyani
#342 opened Sep 30, 2021 by baileythegreen 0.3.0
28
-max_target_seqs 1 is not guaranteed to find the best hit in the database even in -task blastn mode
#322 opened Aug 1, 2021 by jianshu93
3
NUCmer job generation for large jobs slows down rapidly. bug something isn't working how it should enhancement something we'd like pyani to do that it doesn't already
#306 opened Jul 7, 2021 by widdowquinn 0.3.1
@widdowquinn
6
Make version_0_2 the default branch and rename master to version_0_3 documentation documentation is unclear or incomplete VERSION_2 issues relating to version 0.2.x of pyani
#248 opened Apr 14, 2021 by widdowquinn 0.3.0
@widdowquinn
5
Missing labels and captions in plots with default settings documentation documentation is unclear or incomplete question how can I do this? why does it do that? where can I get this? etc. visualisation issues relating to plot outputs
#221 opened Aug 19, 2020 by peterjc 0.3.0
8
Add SLURM support enhancement something we'd like pyani to do that it doesn't already HIGH PRIORITY high priority issue interface issues related to how the user tells pyani to do something
#215 opened Aug 3, 2020 by widdowquinn 0.3.0
1
@widdowquinn
10
Adopt concurrent.futures in place of multiprocessing enhancement something we'd like pyani to do that it doesn't already performance the issue relates to making pyani more efficient
#194 opened Jun 6, 2020 by widdowquinn 0.3.0
@widdowquinn
Add label propagation classifier to pyani for taxon determination enhancement something we'd like pyani to do that it doesn't already method the issue relates to how results are calculated
#188 opened May 29, 2020 by widdowquinn 0.3.0
@widdowquinn
ProTip! What’s not been updated in a month: updated:<2024-10-01.