%global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname microdiluteR %global packver 1.0.1 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} Version: 1.0.1 Release: 1%{?dist}%{?buildtag} Summary: Analysis of Broth Microdilution Assays License: GPL (>= 3) URL: https://cran.r-project.org/package=%{packname} Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz BuildRequires: R-devel >= 4.3 Requires: R-core >= 4.3 BuildArch: noarch BuildRequires: R-CRAN-ggthemes >= 5.0.1 BuildRequires: R-tools >= 4.3.3 BuildRequires: R-CRAN-ggplot2 >= 3.5.0 BuildRequires: R-CRAN-tibble >= 3.2.1 BuildRequires: R-CRAN-magrittr >= 2.0.3 BuildRequires: R-CRAN-stringr >= 1.5.1 BuildRequires: R-CRAN-dplyr >= 1.1.4 BuildRequires: R-CRAN-rlang >= 1.1.3 BuildRequires: R-CRAN-purrr >= 1.0.2 BuildRequires: R-CRAN-rstatix >= 0.7.2 BuildRequires: R-CRAN-vctrs >= 0.6.5 BuildRequires: R-CRAN-ggh4x >= 0.2.8 Requires: R-CRAN-ggthemes >= 5.0.1 Requires: R-tools >= 4.3.3 Requires: R-CRAN-ggplot2 >= 3.5.0 Requires: R-CRAN-tibble >= 3.2.1 Requires: R-CRAN-magrittr >= 2.0.3 Requires: R-CRAN-stringr >= 1.5.1 Requires: R-CRAN-dplyr >= 1.1.4 Requires: R-CRAN-rlang >= 1.1.3 Requires: R-CRAN-purrr >= 1.0.2 Requires: R-CRAN-rstatix >= 0.7.2 Requires: R-CRAN-vctrs >= 0.6.5 Requires: R-CRAN-ggh4x >= 0.2.8 %description A framework for analyzing broth microdilution assays in various 96-well plate designs, visualizing results and providing descriptive and (simple) inferential statistics (i.e. summary statistics and sign test). The functions are designed to add metadata to 8 x 12 tables of absorption values, creating a tidy data frame. Users can choose between clean-up procedures via function parameters (which covers most cases) or user prompts (in cases with complex experimental designs). Users can also choose between two validation methods, i.e. exclusion of absorbance values above a certain threshold or manual exclusion of samples. A function for visual inspection of samples with their absorption values over time for certain group combinations helps with the decision. In addition, the package includes functions to subtract the background absorption (usually at time T0) and to calculate the growth performance compared to a baseline. Samples can be visually inspected with their absorption values displayed across time points for specific group combinations. Core functions of this package (i.e. background subtraction, sample validation and statistics) were inspired by the manual calculations that were applied in Tewes and Muller (2020) <doi:10.1038/s41598-020-67600-7>. %prep %setup -q -c -n %{packname} # fix end of executable files find -type f -executable -exec grep -Iq . {} \; -exec sed -i -e '$a\' {} \; # prevent binary stripping [ -d %{packname}/src ] && find %{packname}/src -type f -exec \ sed -i 's@/usr/bin/strip@/usr/bin/true@g' {} \; || true [ -d %{packname}/src ] && find %{packname}/src/Make* -type f -exec \ sed -i 's@-g0@@g' {} \; || true # don't allow local prefix in executable scripts find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' {} \; %build %install mkdir -p %{buildroot}%{rlibdir} %{_bindir}/R CMD INSTALL -l %{buildroot}%{rlibdir} %{packname} test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so) rm -f %{buildroot}%{rlibdir}/R.css # remove buildroot from installed files find %{buildroot}%{rlibdir} -type f -exec sed -i "s@%{buildroot}@@g" {} \; %files %{rlibdir}/%{packname}