Claude
b1cf7a94ad
Migrate parallel computing in as.sir() from parallel:: to future/future.apply
...
Replace parallel::mclapply() and parallel::parLapply() with
future.apply::future_lapply(), enabling transparent support for any
future backend (multisession, multicore, mirai_multisession, cluster)
on all platforms including Windows.
When parallel = TRUE the function now: (1) respects an active
future::plan() set by the user without overriding it on exit, or
(2) sets a temporary multisession plan with parallelly::availableCores()
and tears it down on exit. The max_cores argument controls worker count
only when no user plan is active.
future and future.apply are added to Suggests in DESCRIPTION.
https://claude.ai/code/session_01M1Jvf2Miu6JL4TQrEh1wS8
2026-04-27 12:21:48 +00:00
Matthijs Berends
8ff5d4472a
Add add_if_missing parameter to control NA handling in interpretive rules ( #264 )
2026-04-21 21:53:43 +02:00
26613d774b
(v3.0.1.9042) add EUCAST breakpoint table v16 to interpretive_rules()
2026-04-02 11:42:19 +02:00
ba4c159154
(v3.0.1.9019) Wildtype/Non-wildtype support, and start with interpretive_rules()
...
Fixes #246
Fixes #254
Fixes #255
Fixes #256
2026-02-08 23:15:40 +01:00
151af21f38
(v3.0.1.9005) re-add tidymodels implementation
2025-12-21 12:19:43 +01:00
753f0e1ef9
(v3.0.0.9001) the first fixes
2025-06-04 13:10:20 +02:00
1710e220dd
AMR v3.0\!
2025-06-02 12:11:00 +02:00
2461631bce
(v2.1.1.9268) WISCA vignette, antibiogram sorting, fix translations
2025-05-01 14:45:21 +02:00
c70ac149ff
new WISCA vignette
2025-04-30 17:33:03 +02:00
579025f678
(v2.1.1.9241) fix sir
2025-04-18 13:25:59 +02:00
cf91e677c6
(v2.1.1.9240) fix sir interpretation
2025-04-16 15:22:12 +02:00
a905303296
(v2.1.1.9234) fix CLSI
2025-04-07 17:36:01 +01:00
1fdab84103
(v2.1.1.9233) chore: make all argument texts full sentences
2025-03-31 14:53:24 +02:00
63099cd81e
(v2.1.1.9232) is.mic() iteration, documentation cleanup
2025-03-31 10:51:31 +02:00
bb110646db
(v2.1.1.9223) allow + ab
2025-03-20 22:56:32 +01:00
287e361a54
(v2.1.1.9218) Fix unit tests
2025-03-19 16:05:24 +01:00
4dc4398ad1
(v2.1.1.9217) allow + in amr selectors
2025-03-18 16:35:22 +01:00
a2c2be23c1
(v2.1.1.9190) antibiotics deprecation in antibiogram()
2025-03-09 10:41:11 +01:00
f7938289eb
(v2.1.1.9186) replace antibiotics with antimicrobials!
2025-03-07 20:43:26 +01:00
07efc292bc
(v2.1.1.9163) cleanup
2025-02-27 14:04:29 +01:00
ef02f4a7f2
(v2.1.1.9151) update readme
2025-02-15 20:53:12 +01:00
9650545d6e
(v2.1.1.9150) unit tests
2025-02-15 13:40:51 +01:00
d94efb0f5e
(v2.1.1.9147) scale fixes and WISCA update, fix conserved capped values
2025-02-14 14:16:46 +01:00
2171f05951
(v2.1.1.9143) unit tests
2025-02-07 19:18:55 +01:00
baea4323c7
(v2.1.1.9140) WISCA fix
2025-02-05 20:48:35 +01:00
700522b466
(v2.1.1.9135) documentation fix
2025-01-28 15:16:55 +01:00
e740aa691b
(v2.1.1.9134) add Gamma to WISCA documentation
2025-01-27 23:11:10 +01:00
2561494e06
(v2.1.1.9133) update math formulae
2025-01-27 22:43:35 +01:00
1149360b27
(v2.1.1.9129) unit test fix
2025-01-27 16:17:03 +01:00
7accf6ff13
(v2.1.1.9127) unit tests
2025-01-27 10:46:43 +01:00
66833b4f5a
(v2.1.1.9126) implemented WISCA! Also added top_n_microorganisms() and fixed Python wrapper
2025-01-26 23:01:17 +01:00
92c4fc0f94
(v2.1.1.9125) replace 'antibiotic selectors' with 'antimicrobial selectors'
2025-01-17 12:09:39 +01:00
ac1c40d8bb
(v2.1.1.9081) HUGE microorganisms update for fungi!
2024-09-29 22:17:56 +02:00
1ca40e8d67
(v2.1.1.9079) fix for uti in as.sir()
2024-09-24 15:34:12 +02:00
127892430d
(v2.1.1.9078) 12 new formatting formats for antibiogram(), prepare for Bayesian WISCA
2024-09-22 11:45:51 +02:00
640888f408
(v2.1.1.9064) update all microbial taxonomy, add mycobank, big documentation update
2024-07-16 14:53:17 +02:00
91fa73dedf
add oxygen tolerance
2023-05-11 21:56:27 +02:00
549790c2a6
website
2023-03-20 21:59:50 +01:00
262598b8d7
support for old rsi arguments
2023-03-11 14:24:34 +01:00
92029c9e95
remove note
2023-02-24 10:31:36 +01:00
049baf0a71
fix for antibiograms on R < 3.5
2023-02-24 09:43:10 +01:00
e70f2cd32c
knitr format
2023-02-23 16:27:40 +01:00
a84101db08
N for only 1 AB in
2023-02-22 16:26:13 +01:00
c2cfc5ef84
fix for antibiogram(), transform WHONET data set to sir
2023-02-22 15:40:05 +01:00
dad25302f2
make rsi work in more cases, documentation update
2023-02-22 14:38:57 +01:00
e890360986
website syntax update
2023-02-17 11:39:00 +01:00
714a048fa9
italicise antibiogram
2023-02-17 09:42:51 +01:00
ef716f6ee3
doc fix
2023-02-15 17:16:40 +01:00
3396236eef
unit test fixes
2023-02-13 16:56:25 +01:00
b6d2b1398d
Fix for antibiogram() in R <=3.4
2023-02-13 10:21:43 +01:00
