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Eric Coissac eae41ac81c fix: respect config defaults when --allowed-mismatches is unset 
The change replaces numeric threshold checks with an explicit flag state tracker for the `--allowed-mismatches` option. This ensures per-primer mismatch settings from configuration files are preserved when the CLI parameter is omitted or zero, making the command-line flag act strictly as an explicit override rather than a default fallback.
2026-08-19 16:40:48 +02:00
..
obialign
work on obiclean chimera detection
2025-10-20 17:29:47 +02:00
obiapat
debug obimultiplex
2025-11-06 15:43:13 +01:00
obichunk
Fix classifier cloning and reset in chunk processing
2026-02-08 15:52:25 +01:00
obicorazick
Add progress bar configuration and conditional display
2026-02-08 16:14:02 +01:00
obidefault
refactor: replace single batch size with min/max bounds and memory limits
2026-03-13 15:07:35 +01:00
obidist
Add Jaccard distance and similarity computations for KmerSet and KmerSetGroup
2026-02-05 17:39:23 +01:00
obiformats
feat: add JSON input support for biological sequences
2026-07-03 10:16:55 +02:00
obifp
Adds the --silent-warning options to the obitools commands and removes the --pared-with option from some of the obitols commands.
2025-03-25 16:44:46 +01:00
obigraph
Add obiminion first version
2024-05-14 08:16:12 +02:00
obiiter
refactor: replace fixed batch size with dynamic flushing based on count and memory
2026-03-16 22:06:44 +01:00
obiitercsv
break the import cyccle
2025-01-27 17:23:07 +01:00
obikmer
Correct Shannon entropy bias for canonical k-mers
2026-05-17 14:54:57 +08:00
obilog
Adds the --silent-warning options to the obitools commands and removes the --pared-with option from some of the obitols commands.
2025-03-25 16:44:46 +01:00
obilua
chore: bump version to 4.4.39
2026-04-14 14:48:29 +02:00
obingslibrary
fix: respect config defaults when --allowed-mismatches is unset
2026-08-19 16:40:48 +02:00
obioptions
Release 4.4.46
2026-07-02 08:50:00 +02:00
obiphylo
Changes to be committed:
2025-06-04 09:48:10 +02:00
obiseq
fix: correct duplicated typos in GVal function names
2026-06-02 15:00:48 +02:00
obistats
Adds the --silent-warning options to the obitools commands and removes the --pared-with option from some of the obitols commands.
2025-03-25 16:44:46 +01:00
obisuffix
Swich to the system min and max functions and remove the version from obiutils
2024-05-30 08:27:24 +02:00
obitable
many changes ;-)
2023-12-05 15:28:29 +01:00
obitax
feat(obiconvert): add --raw-taxid option and refactor taxID formatting
2026-04-30 16:57:38 +02:00
obitools
fix: respect config defaults when --allowed-mismatches is unset
2026-08-19 16:40:48 +02:00
obiutils
feat: add JSON input support for biological sequences
2026-07-03 10:16:55 +02:00