diff --git a/specs/R-CRAN-Keng.spec b/specs/R-CRAN-Keng.spec index d33c4a891..ac12159ab 100644 --- a/specs/R-CRAN-Keng.spec +++ b/specs/R-CRAN-Keng.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname Keng -%global packver 2024.11.17 +%global packver 2024.11.25 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 2024.11.17 +Version: 2024.11.25 Release: 1%{?dist}%{?buildtag} Summary: Knock Errors Off Nice Guesses @@ -25,8 +25,12 @@ Miscellaneous functions and data used in Qingyao's psychological research and teaching. Keng currently has a built-in dataset depress, and could (1) scale a vector, (2) test the significance and compute the cut-off values of Pearson's r without raw data, (3) compare lm()'s fitted outputs using -R-squared and PRE (Proportional Reduction in Error, also called partial -R-squared or partial Eta-squared). +R-squared, f_squared, post-hoc power, and PRE (Proportional Reduction in +Error, also called partial R-squared or partial Eta-squared). (4) +Calculate PRE from partial correlation, Cohen's f, or f_squared. (5) +Compute the post-hoc power for one or a set of predictors in regression +analysis without raw data, (6) Plan the sample size for one or a set of +predictors in regression analysis. %prep %setup -q -c -n %{packname} diff --git a/specs/R-CRAN-RPANDA.spec b/specs/R-CRAN-RPANDA.spec deleted file mode 100644 index cc49b2caa..000000000 --- a/specs/R-CRAN-RPANDA.spec +++ /dev/null @@ -1,138 +0,0 @@ -%global __brp_check_rpaths %{nil} -%global __requires_exclude ^libmpi -%global packname RPANDA -%global packver 2.3 -%global rlibdir /usr/local/lib/R/library - -Name: R-CRAN-%{packname} -Version: 2.3 -Release: 1%{?dist}%{?buildtag} -Summary: Phylogenetic ANalyses of DiversificAtion - -License: GPL-2 -URL: https://cran.r-project.org/package=%{packname} -Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz - - -BuildRequires: R-devel >= 3.5.0 -Requires: R-core >= 3.5.0 -BuildRequires: R-CRAN-mvMORPH >= 1.1.6 -BuildRequires: R-CRAN-ape -BuildRequires: R-CRAN-picante -BuildRequires: R-methods -BuildRequires: R-CRAN-BB -BuildRequires: R-CRAN-bipartite -BuildRequires: R-CRAN-cluster -BuildRequires: R-CRAN-coda -BuildRequires: R-CRAN-deSolve -BuildRequires: R-CRAN-fields -BuildRequires: R-CRAN-fpc -BuildRequires: R-CRAN-geiger -BuildRequires: R-CRAN-glassoFast -BuildRequires: R-graphics -BuildRequires: R-grDevices -BuildRequires: R-CRAN-igraph -BuildRequires: R-CRAN-Matrix -BuildRequires: R-CRAN-mvtnorm -BuildRequires: R-CRAN-GUniFrac -BuildRequires: R-parallel -BuildRequires: R-CRAN-ParallelLogger -BuildRequires: R-CRAN-phangorn -BuildRequires: R-CRAN-phytools -BuildRequires: R-CRAN-pracma -BuildRequires: R-CRAN-pspline -BuildRequires: R-CRAN-pvclust -BuildRequires: R-CRAN-raster -BuildRequires: R-CRAN-RColorBrewer -BuildRequires: R-CRAN-R.utils -BuildRequires: R-CRAN-Rmpfr -BuildRequires: R-stats -BuildRequires: R-CRAN-TESS -BuildRequires: R-utils -BuildRequires: R-CRAN-vegan -Requires: R-CRAN-mvMORPH >= 1.1.6 -Requires: R-CRAN-ape -Requires: R-CRAN-picante -Requires: R-methods -Requires: R-CRAN-BB -Requires: R-CRAN-bipartite -Requires: R-CRAN-cluster -Requires: R-CRAN-coda -Requires: R-CRAN-deSolve -Requires: R-CRAN-fields -Requires: R-CRAN-fpc -Requires: R-CRAN-geiger -Requires: R-CRAN-glassoFast -Requires: R-graphics -Requires: R-grDevices -Requires: R-CRAN-igraph -Requires: R-CRAN-Matrix -Requires: R-CRAN-mvtnorm -Requires: R-CRAN-GUniFrac -Requires: R-parallel -Requires: R-CRAN-ParallelLogger -Requires: R-CRAN-phangorn -Requires: R-CRAN-phytools -Requires: R-CRAN-pracma -Requires: R-CRAN-pspline -Requires: R-CRAN-pvclust -Requires: R-CRAN-raster -Requires: R-CRAN-RColorBrewer -Requires: R-CRAN-R.utils -Requires: R-CRAN-Rmpfr -Requires: R-stats -Requires: R-CRAN-TESS -Requires: R-utils -Requires: R-CRAN-vegan - -%description -Implements macroevolutionary analyses on phylogenetic trees. See Morlon et -al. (2010) , Morlon et al. (2011) -, Condamine et al. (2013) -, Morlon et al. (2014) , -Manceau et al. (2015) , Lewitus & Morlon (2016) -, Drury et al. (2016) -, Manceau et al. (2016) -, Morlon et al. (2016) -, Clavel & Morlon (2017) -, Drury et al. (2017) -, Lewitus & Morlon (2017) -, Drury et al. (2018) -, Clavel et al. (2019) -, Maliet et al. (2019) -, Billaud et al. (2019) -, Lewitus et al. (2019) -, Aristide & Morlon (2019) -, Maliet et al. (2020) , -Drury et al. (2021) , Perez-Lamarque & -Morlon (2022) , Perez-Lamarque et al. (2022) -, Mazet et al. (2023) -, Drury et al. (2024) -. - -%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} diff --git a/specs/R-CRAN-RaceID.spec b/specs/R-CRAN-RaceID.spec index 9c7fe58e5..a5553dcb2 100644 --- a/specs/R-CRAN-RaceID.spec +++ b/specs/R-CRAN-RaceID.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname RaceID -%global packver 0.3.8 +%global packver 0.3.9 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 0.3.8 +Version: 0.3.9 Release: 1%{?dist}%{?buildtag} Summary: Identification of Cell Types, Inference of Lineage Trees, and Prediction of Noise Dynamics from Single-Cell RNA-Seq Data diff --git a/specs/R-CRAN-dawaR.spec b/specs/R-CRAN-dawaR.spec index be1a9112a..a93670d68 100644 --- a/specs/R-CRAN-dawaR.spec +++ b/specs/R-CRAN-dawaR.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname dawaR -%global packver 0.2.4 +%global packver 0.2.6 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 0.2.4 +Version: 0.2.6 Release: 1%{?dist}%{?buildtag} Summary: An API Wrapper for 'DAWA' - 'The Danish Address Web API' @@ -23,12 +23,16 @@ BuildRequires: R-CRAN-httr2 BuildRequires: R-CRAN-sf BuildRequires: R-CRAN-tidyRSS BuildRequires: R-CRAN-rlang +BuildRequires: R-CRAN-curl +BuildRequires: R-utils Requires: R-CRAN-memoise >= 2.0.0 Requires: R-CRAN-cli Requires: R-CRAN-httr2 Requires: R-CRAN-sf Requires: R-CRAN-tidyRSS Requires: R-CRAN-rlang +Requires: R-CRAN-curl +Requires: R-utils %description Functions for interacting with all sections of the official 'Danish diff --git a/specs/R-CRAN-eseis.spec b/specs/R-CRAN-eseis.spec new file mode 100644 index 000000000..67f7c1b63 --- /dev/null +++ b/specs/R-CRAN-eseis.spec @@ -0,0 +1,81 @@ +%global __brp_check_rpaths %{nil} +%global __requires_exclude ^libmpi +%global packname eseis +%global packver 0.8.0 +%global rlibdir /usr/local/lib/R/library + +Name: R-CRAN-%{packname} +Version: 0.8.0 +Release: 1%{?dist}%{?buildtag} +Summary: Environmental Seismology Toolbox + +License: GPL-3 +URL: https://cran.r-project.org/package=%{packname} +Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz + + +BuildRequires: R-devel >= 4.0.0 +Requires: R-core >= 4.0.0 +BuildRequires: R-CRAN-terra +BuildRequires: R-CRAN-caTools +BuildRequires: R-CRAN-signal +BuildRequires: R-CRAN-fftw +BuildRequires: R-CRAN-matrixStats +BuildRequires: R-graphics +BuildRequires: R-methods +BuildRequires: R-CRAN-XML +BuildRequires: R-CRAN-shiny +BuildRequires: R-CRAN-rmarkdown +BuildRequires: R-CRAN-colorspace +BuildRequires: R-CRAN-reticulate +BuildRequires: R-CRAN-extraDistr +BuildRequires: R-CRAN-minpack.lm +BuildRequires: R-CRAN-Rcpp +Requires: R-CRAN-terra +Requires: R-CRAN-caTools +Requires: R-CRAN-signal +Requires: R-CRAN-fftw +Requires: R-CRAN-matrixStats +Requires: R-graphics +Requires: R-methods +Requires: R-CRAN-XML +Requires: R-CRAN-shiny +Requires: R-CRAN-rmarkdown +Requires: R-CRAN-colorspace +Requires: R-CRAN-reticulate +Requires: R-CRAN-extraDistr +Requires: R-CRAN-minpack.lm +Requires: R-CRAN-Rcpp + +%description +Environmental seismology is a scientific field that studies the seismic +signals, emitted by Earth surface processes. This package provides all +relevant functions to read/write seismic data files, prepare, analyse and +visualise seismic data, and generate reports of the processing history. + +%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} diff --git a/specs/R-CRAN-heplots.spec b/specs/R-CRAN-heplots.spec index d148595d1..40baa2b6e 100644 --- a/specs/R-CRAN-heplots.spec +++ b/specs/R-CRAN-heplots.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname heplots -%global packver 1.7.0 +%global packver 1.7.1 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 1.7.0 +Version: 1.7.1 Release: 1%{?dist}%{?buildtag} Summary: Visualizing Hypothesis Tests in Multivariate Linear Models diff --git a/specs/R-CRAN-mlr3.spec b/specs/R-CRAN-mlr3.spec index 284dbd344..45cbb3606 100644 --- a/specs/R-CRAN-mlr3.spec +++ b/specs/R-CRAN-mlr3.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname mlr3 -%global packver 0.21.1 +%global packver 0.22.0 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 0.21.1 +Version: 0.22.0 Release: 1%{?dist}%{?buildtag} Summary: Machine Learning in R - Next Generation diff --git a/specs/R-CRAN-modEvA.spec b/specs/R-CRAN-modEvA.spec index 00b84124c..38c9f9107 100644 --- a/specs/R-CRAN-modEvA.spec +++ b/specs/R-CRAN-modEvA.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname modEvA -%global packver 3.20 +%global packver 3.23 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 3.20 +Version: 3.23 Release: 1%{?dist}%{?buildtag} Summary: Model Evaluation and Analysis diff --git a/specs/R-CRAN-origin.spec b/specs/R-CRAN-origin.spec index aa3662fa7..226d2aea4 100644 --- a/specs/R-CRAN-origin.spec +++ b/specs/R-CRAN-origin.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname origin -%global packver 1.1.2 +%global packver 1.2.0 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 1.1.2 +Version: 1.2.0 Release: 1%{?dist}%{?buildtag} Summary: Explicitly Qualifying Namespaces by Automatically Adding 'pkg::' to Functions diff --git a/specs/R-CRAN-orthGS.spec b/specs/R-CRAN-orthGS.spec deleted file mode 100644 index 9e4893e26..000000000 --- a/specs/R-CRAN-orthGS.spec +++ /dev/null @@ -1,66 +0,0 @@ -%global __brp_check_rpaths %{nil} -%global __requires_exclude ^libmpi -%global packname orthGS -%global packver 0.1.5 -%global rlibdir /usr/local/lib/R/library - -Name: R-CRAN-%{packname} -Version: 0.1.5 -Release: 1%{?dist}%{?buildtag} -Summary: Orthology vs Paralogy Relationships among Glutamine Synthetase from Plants - -License: GPL (>= 2) -URL: https://cran.r-project.org/package=%{packname} -Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz - - -BuildRequires: R-devel >= 2.10 -Requires: R-core >= 2.10 -BuildArch: noarch -BuildRequires: R-CRAN-ape -BuildRequires: R-CRAN-bio3d -BuildRequires: R-CRAN-castor -BuildRequires: R-CRAN-igraph -BuildRequires: R-CRAN-phangorn -BuildRequires: R-CRAN-phytools -BuildRequires: R-CRAN-seqinr -BuildRequires: R-CRAN-TreeTools -Requires: R-CRAN-ape -Requires: R-CRAN-bio3d -Requires: R-CRAN-castor -Requires: R-CRAN-igraph -Requires: R-CRAN-phangorn -Requires: R-CRAN-phytools -Requires: R-CRAN-seqinr -Requires: R-CRAN-TreeTools - -%description -Tools to analyze and infer orthology and paralogy relationships between -glutamine synthetase proteins in seed plants. - -%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} diff --git a/specs/R-CRAN-photosynthesis.spec b/specs/R-CRAN-photosynthesis.spec index bb3e5f5ba..0522d96a2 100644 --- a/specs/R-CRAN-photosynthesis.spec +++ b/specs/R-CRAN-photosynthesis.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname photosynthesis -%global packver 2.1.4 +%global packver 2.1.5 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 2.1.4 +Version: 2.1.5 Release: 1%{?dist}%{?buildtag} Summary: Tools for Plant Ecophysiology & Modeling diff --git a/specs/R-CRAN-qs2.spec b/specs/R-CRAN-qs2.spec index 55d6be712..546665ee1 100644 --- a/specs/R-CRAN-qs2.spec +++ b/specs/R-CRAN-qs2.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname qs2 -%global packver 0.1.1 +%global packver 0.1.2 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 0.1.1 +Version: 0.1.2 Release: 1%{?dist}%{?buildtag} Summary: Efficient Serialization of R Objects diff --git a/specs/R-CRAN-visOmopResults.spec b/specs/R-CRAN-visOmopResults.spec index e66a393d2..8083ad03e 100644 --- a/specs/R-CRAN-visOmopResults.spec +++ b/specs/R-CRAN-visOmopResults.spec @@ -1,11 +1,11 @@ %global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname visOmopResults -%global packver 0.4.0 +%global packver 0.5.0 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} -Version: 0.4.0 +Version: 0.5.0 Release: 1%{?dist}%{?buildtag} Summary: Graphs and Tables for OMOP Results @@ -17,7 +17,7 @@ Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz BuildRequires: R-devel Requires: R-core BuildArch: noarch -BuildRequires: R-CRAN-omopgenerics >= 0.2.0 +BuildRequires: R-CRAN-omopgenerics >= 0.3.1 BuildRequires: R-CRAN-cli BuildRequires: R-CRAN-dplyr BuildRequires: R-CRAN-generics @@ -27,7 +27,7 @@ BuildRequires: R-CRAN-purrr BuildRequires: R-CRAN-rlang BuildRequires: R-CRAN-stringr BuildRequires: R-CRAN-tidyr -Requires: R-CRAN-omopgenerics >= 0.2.0 +Requires: R-CRAN-omopgenerics >= 0.3.1 Requires: R-CRAN-cli Requires: R-CRAN-dplyr Requires: R-CRAN-generics