dr. M.S. (Matthijs) Berends 724a94a48f Add a tool to compare as.sir() results between builds, and apply the Bacteroides extension to zone diameters ...

The new compare_clinical_breakpoints.R compares the interpretations of two builds, and fails on any change that is not explained. A rebuild of main with pinned WHONET files reproduces all rows of clinical_breakpoints and microorganisms.codes.

The filter on MIC rows in the scope extensions is removed, since these now join on the method of each statement. It kept the DISK rows of the Bacteroides statement from being copied.

2026-11-02 16:55:36 +01:00

..

compare_clinical_breakpoints.R

Add a tool to compare as.sir() results between builds, and apply the Bacteroides extension to zone diameters

2026-11-02 16:55:36 +01:00

reproduction_of_antimicrobials.R

(v3.0.1.9109) Fix WHONET codes SUD and ROX in clinical_breakpoints, and add sulbactam/durlobactam (#308)

2026-10-10 09:42:25 +02:00

reproduction_of_antivirals.R

new eucast breakpoints parsing

2026-08-20 13:29:16 +01:00

reproduction_of_clinical_breakpoints_eucast.R

Add a tool to compare as.sir() results between builds, and apply the Bacteroides extension to zone diameters

2026-11-02 16:55:36 +01:00

reproduction_of_clinical_breakpoints.R

(v3.0.1.9149) Fix WHONET codes in microorganisms.codes that referred to unrelated microorganisms, let codes refer to the name they were named after and add a source column, and replace the fuzzy matching of WHONET names by exact matching with a guard against unreviewed remaps

2026-10-15 21:08:04 +02:00

reproduction_of_dosage.R

new eucast breakpoints parsing

2026-08-20 13:29:16 +01:00

reproduction_of_example_isolates_unclean.R

new eucast breakpoints parsing

2026-08-20 13:29:16 +01:00

reproduction_of_intrinsic_resistant.R

(v3.0.1.9121) styler

2026-10-12 11:42:06 +02:00

reproduction_of_microorganisms_CLAUDE.md

(v3.0.1.9149) Fix WHONET codes in microorganisms.codes that referred to unrelated microorganisms, let codes refer to the name they were named after and add a source column, and replace the fuzzy matching of WHONET names by exact matching with a guard against unreviewed remaps

2026-10-15 21:08:04 +02:00

reproduction_of_microorganisms.groups.R

Update taxonomy of microorganisms (2026-10) (#312)

2026-10-07 12:55:12 +02:00

reproduction_of_microorganisms.R

(v3.0.1.9149) Fix WHONET codes in microorganisms.codes that referred to unrelated microorganisms, let codes refer to the name they were named after and add a source column, and replace the fuzzy matching of WHONET names by exact matching with a guard against unreviewed remaps

2026-10-15 21:08:04 +02:00

reproduction_of_poorman.R

(v3.0.0.9007) allow any tidyselect language in as.sir()

2025-07-17 14:29:35 +02:00

run_after_microorganisms_build.R

(v3.0.1.9121) styler

2026-10-12 11:42:06 +02:00

run_microorganisms_build.R

(v3.0.1.9096) MO code registry: codes never change meaning, are never guessed, and are validated

2026-10-03 11:45:25 +02:00