Eric Coissac
eae41ac81c
fix: respect config defaults when --allowed-mismatches is unset
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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
Eric Coissac
7c4042df6b
introduce obidefault
2025-01-27 17:12:45 +01:00
Eric Coissac
1b43fa4247
First complete version of obimultiplex2
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Former-commit-id: 170593bd597c7914d3f1fd3d2b865186d7f11966
2024-06-06 23:11:13 +02:00
Eric Coissac
65f5109957
Plenty of small bugs
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Former-commit-id: 42c7fab7d65906c80ab4cd32da6867ff21842ea8
2024-06-04 16:49:12 +02:00
coissac
0f3871d203
Change the API of workers
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Former-commit-id: 9b07306edd8cf28266f86f95823948fa99d39ea9
2024-03-02 16:03:46 -04:00
coissac
a36e830de3
homogenize worker count
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Former-commit-id: 4352ac6694c08023cdf0e090723fac8af655cea4
2023-12-20 08:14:07 +01:00
coissac
8d77cc4133
Change path of the obitools pkg
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Former-commit-id: 311cbf8df3b990b393c6f4885d62e74564423b65
2023-11-29 12:14:37 +01:00
coissac
27d6c60e25
Add the possibility to look for patterns allowing indels.
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Former-commit-id: 0599c2b0ad16df086dbdb08e491503870d8904be
2023-03-20 15:28:24 +07:00
coissac
d88de15cdc
Refactoring codes for removing buffer size options. An some other changes...
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Former-commit-id: 10b57cc1a27446ade3c444217341e9651e89cdce
2023-03-07 11:12:13 +07:00
coissac
2d375df94f
move the worker class to the obiseq package
2023-01-22 22:39:13 +01:00
coissac
f8df48338d
Several bug in annotation management
2022-10-12 23:01:47 +02:00
coissac
eaf65fbcce
Some code refactoring, a new version of obiuniq more efficient in memory and a first make file allowing to build obitools
2022-02-24 07:08:40 +01:00
coissac
38e4655f38
Correct for a strange bug...
2022-02-07 11:51:35 +01:00
coissac
8dbda68746
Adds the command obimultiplex
2022-02-01 17:31:28 +01:00
Eric Coissac
coissac