P281424/AMR
1
0
Fork 0
mirror of https://github.com/msberends/AMR.git synced 2025-04-20 20:33:54 +02:00
Code Releases Activity

(v2.1.1.9156) fix for knitr in WISCA

Browse Source
This commit is contained in:
dr. M.S. (Matthijs) Berends 2025-02-23 19:18:42 +01:00
parent aa8f6af185
commit b10989f431
No known key found for this signature in database
9 changed files with 6 additions and 6 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
DESCRIPTION
View File

@ -1,5 +1,5 @@
Package: AMR Package: AMR
Version: 2.1.1.9155 Version: 2.1.1.9156
Date: 2025-02-23 Date: 2025-02-23
Title: Antimicrobial Resistance Data Analysis Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR) Description: Functions to simplify and standardise antimicrobial resistance (AMR)

2
NEWS.md
View File

@ -1,4 +1,4 @@
# AMR 2.1.1.9155 # AMR 2.1.1.9156
*(this beta version will eventually become v3.0. We're happy to reach a new major milestone soon, which will be all about the new One Health support! Install this beta using [the instructions here](https://msberends.github.io/AMR/#latest-development-version).)* *(this beta version will eventually become v3.0. We're happy to reach a new major milestone soon, which will be all about the new One Health support! Install this beta using [the instructions here](https://msberends.github.io/AMR/#latest-development-version).)*

2
PythonPackage/AMR/AMR.egg-info/PKG-INFO
View File

@ -1,6 +1,6 @@
Metadata-Version: 2.2 Metadata-Version: 2.2
Name: AMR Name: AMR
Version: 2.1.1.9155 Version: 2.1.1.9156
Summary: A Python wrapper for the AMR R package Summary: A Python wrapper for the AMR R package
Home-page: https://github.com/msberends/AMR Home-page: https://github.com/msberends/AMR
Author: Matthijs Berends Author: Matthijs Berends

BIN
PythonPackage/AMR/dist/AMR-2.1.1.9155-py3-none-any.whl → PythonPackage/AMR/dist/AMR-2.1.1.9156-py3-none-any.whl vendored
View File

Binary file not shown.

BIN
PythonPackage/AMR/dist/amr-2.1.1.9155.tar.gz vendored
View File

Binary file not shown.

BIN
PythonPackage/AMR/dist/amr-2.1.1.9156.tar.gz vendored Normal file
View File

Binary file not shown.

2
PythonPackage/AMR/setup.py
View File

@ -2,7 +2,7 @@ from setuptools import setup, find_packages
setup( setup(
name='AMR', name='AMR',
version='2.1.1.9155', version='2.1.1.9156',
packages=find_packages(), packages=find_packages(),
install_requires=[ install_requires=[
'rpy2', 'rpy2',

2
R/antibiogram.R
View File

@ -1245,7 +1245,7 @@ knit_print.antibiogram <- function(x, italicise = TRUE, na = getOption("knitr.ka
meet_criteria(italicise, allow_class = "logical", has_length = 1) meet_criteria(italicise, allow_class = "logical", has_length = 1)
meet_criteria(na, allow_class = "character", has_length = 1, allow_NA = TRUE) meet_criteria(na, allow_class = "character", has_length = 1, allow_NA = TRUE)
if (isTRUE(italicise) && "mo" %in% colnames(attributes(x)$long_numeric)) { if (!isTRUE(attributes(x)$wisca) && isTRUE(italicise) && "mo" %in% colnames(attributes(x)$long_numeric)) {
# make all microorganism names italic, according to nomenclature # make all microorganism names italic, according to nomenclature
names_col <- ifelse(isTRUE(attributes(x)$has_syndromic_group), 2, 1) names_col <- ifelse(isTRUE(attributes(x)$has_syndromic_group), 2, 1)
x[[names_col]] <- italicise_taxonomy(x[[names_col]], type = "markdown") x[[names_col]] <- italicise_taxonomy(x[[names_col]], type = "markdown")

2
data-raw/gpt_training_text_v2.1.1.9155.txt → data-raw/gpt_training_text_v2.1.1.9156.txt
View File

@ -1,6 +1,6 @@
This knowledge base contains all context you must know about the AMR package for R. You are a GPT trained to be an assistant for the AMR package in R. You are an incredible R specialist, especially trained in this package and in the tidyverse. This knowledge base contains all context you must know about the AMR package for R. You are a GPT trained to be an assistant for the AMR package in R. You are an incredible R specialist, especially trained in this package and in the tidyverse.
First and foremost, you are trained on version 2.1.1.9155. Remember this whenever someone asks which AMR package version you’re at. First and foremost, you are trained on version 2.1.1.9156. Remember this whenever someone asks which AMR package version you’re at.
Below are the contents of the file, the file, and all the files (documentation) in the package. Every file content is split using 100 hypens. Below are the contents of the file, the file, and all the files (documentation) in the package. Every file content is split using 100 hypens.
---------------------------------------------------------------------------------------------------- ----------------------------------------------------------------------------------------------------