sync

specs/R-CRAN-AID.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  AID
-%global packver   2.9
+%global packver   3.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          2.9
+Version:          3.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Box-Cox Power Transformation
 

specs/R-CRAN-AOboot.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  AOboot
-%global packver   0.1.0
+%global packver   0.1.1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.0
+Version:          0.1.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Bootstrapping in Different One-Way and Two-Way ANOVA
 

specs/R-CRAN-AllelicSeries.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  AllelicSeries
-%global packver   0.1.0.2
+%global packver   0.1.1.1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.0.2
+Version:          0.1.1.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Allelic Series Test
 

specs/R-CRAN-DrugExposureDiagnostics.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  DrugExposureDiagnostics
-%global packver   1.0.9
+%global packver   1.0.10
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.0.9
+Version:          1.0.10
 Release:          1%{?dist}%{?buildtag}
 Summary:          Diagnostics for OMOP Common Data Model Drug Records
 

specs/R-CRAN-GWlasso.spec

@@ -0,0 +1,77 @@
+%global __brp_check_rpaths %{nil}
+%global __requires_exclude ^libmpi
+%global packname  GWlasso
+%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:          Geographically Weighted Lasso
+
+License:          MIT + file LICENSE
+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
+BuildArch:        noarch
+BuildRequires:    R-CRAN-dplyr 
+BuildRequires:    R-CRAN-ggplot2 
+BuildRequires:    R-CRAN-ggside 
+BuildRequires:    R-CRAN-glmnet 
+BuildRequires:    R-CRAN-GWmodel 
+BuildRequires:    R-CRAN-lifecycle 
+BuildRequires:    R-CRAN-magrittr 
+BuildRequires:    R-methods 
+BuildRequires:    R-CRAN-progress 
+BuildRequires:    R-CRAN-rlang 
+BuildRequires:    R-CRAN-sf 
+BuildRequires:    R-CRAN-tidyr 
+Requires:         R-CRAN-dplyr 
+Requires:         R-CRAN-ggplot2 
+Requires:         R-CRAN-ggside 
+Requires:         R-CRAN-glmnet 
+Requires:         R-CRAN-GWmodel 
+Requires:         R-CRAN-lifecycle 
+Requires:         R-CRAN-magrittr 
+Requires:         R-methods 
+Requires:         R-CRAN-progress 
+Requires:         R-CRAN-rlang 
+Requires:         R-CRAN-sf 
+Requires:         R-CRAN-tidyr 
+
+%description
+Performs geographically weighted Lasso regressions. Find optimal
+bandwidth, fit a geographically weighted lasso or ridge regression, and
+make predictions. These methods are specially well suited for ecological
+inferences. Bandwidth selection algorithm is from A. Comber and P. Harris
+(2018) <doi:10.1007/s10109-018-0280-7>.
+
+%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}

specs/R-CRAN-LTFHPlus.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  LTFHPlus
-%global packver   2.1.1
+%global packver   2.1.2
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          2.1.1
+Version:          2.1.2
 Release:          1%{?dist}%{?buildtag}
 Summary:          Implementation of LT-FH++
 
@@ -52,12 +52,12 @@ Implementation of LT-FH++, an extension of the liability threshold family
 history (LT-FH) model. LT-FH++ uses a Gibbs sampler for sampling from the
 truncated multivariate normal distribution and allows for flexible family
 structures. LT-FH++ was first described in Pedersen, Emil M., et al.
-(2022) <https://pure.au.dk/ws/portalfiles/portal/353346245/> as an
-extension to LT-FH with more flexible family structures, and again as the
-age-dependent liability threshold (ADuLT) model Pedersen, Emil M., et al.
-(2023) <https://www.nature.com/articles/s41467-023-41210-z> as an
-alternative to traditional time-to-event genome-wide association studies,
-where family history was not considered.
+(2022) <doi:10.1016/j.ajhg.2022.01.009> as an extension to LT-FH with more
+flexible family structures, and again as the age-dependent liability
+threshold (ADuLT) model Pedersen, Emil M., et al. (2023)
+<doi:10.1038/s41467-023-41210-z> as an alternative to traditional
+time-to-event genome-wide association studies, where family history was
+not considered.
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-MSEtool.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  MSEtool
-%global packver   3.7.2
+%global packver   3.7.3
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          3.7.2
+Version:          3.7.3
 Release:          1%{?dist}%{?buildtag}
 Summary:          Management Strategy Evaluation Toolkit
 

specs/R-CRAN-MVar.pt.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  MVar.pt
-%global packver   2.2.4
+%global packver   2.2.5
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          2.2.4
+Version:          2.2.5
 Release:          1%{?dist}%{?buildtag}
 Summary:          Analise multivariada (brazilian portuguese)
 

specs/R-CRAN-MVar.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  MVar
-%global packver   2.2.4
+%global packver   2.2.5
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          2.2.4
+Version:          2.2.5
 Release:          1%{?dist}%{?buildtag}
 Summary:          Multivariate Analysis
 

specs/R-CRAN-NGLVieweR.spec

@@ -1,10 +1,11 @@
 %global __brp_check_rpaths %{nil}
+%global __requires_exclude ^libmpi
 %global packname  NGLVieweR
-%global packver   1.3.1
+%global packver   1.4.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.3.1
+Version:          1.4.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Interactive 3D Visualization of Molecular Structures
 
@@ -40,6 +41,8 @@ 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' {} \;
 

specs/R-CRAN-OlinkAnalyze.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  OlinkAnalyze
-%global packver   4.0.1
+%global packver   4.0.2
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          4.0.1
+Version:          4.0.2
 Release:          1%{?dist}%{?buildtag}
 Summary:          Facilitate Analysis of Proteomic Data from Olink
 

specs/R-CRAN-REDCapCAST.spec

@@ -1,13 +1,13 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  REDCapCAST
-%global packver   24.10.3
+%global packver   24.11.2
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          24.10.3
+Version:          24.11.2
 Release:          1%{?dist}%{?buildtag}
-Summary:          REDCap Castellated Data Handling
+Summary:          REDCap Metadata Casting and Castellated Data Handling
 
 License:          GPL (>= 3)
 URL:              https://cran.r-project.org/package=%{packname}
@@ -31,6 +31,12 @@ BuildRequires:    R-CRAN-zip
 BuildRequires:    R-CRAN-assertthat 
 BuildRequires:    R-CRAN-openxlsx2 
 BuildRequires:    R-CRAN-readODS 
+BuildRequires:    R-CRAN-forcats 
+BuildRequires:    R-CRAN-vctrs 
+BuildRequires:    R-CRAN-gt 
+BuildRequires:    R-CRAN-bslib 
+BuildRequires:    R-CRAN-here 
+BuildRequires:    R-CRAN-glue 
 Requires:         R-CRAN-dplyr 
 Requires:         R-CRAN-REDCapR 
 Requires:         R-CRAN-tidyr 
@@ -45,21 +51,28 @@ Requires:         R-CRAN-zip
 Requires:         R-CRAN-assertthat 
 Requires:         R-CRAN-openxlsx2 
 Requires:         R-CRAN-readODS 
+Requires:         R-CRAN-forcats 
+Requires:         R-CRAN-vctrs 
+Requires:         R-CRAN-gt 
+Requires:         R-CRAN-bslib 
+Requires:         R-CRAN-here 
+Requires:         R-CRAN-glue 
 
 %description
-Originally forked from the R part of 'REDCapRITS' by Paul Egeler. See
-<https://github.com/pegeler/REDCapRITS>. 'REDCap' database casting and
-handling of castellated data when using repeated instruments and
-longitudinal projects. Keeps a focused data export approach, by allowing
-to only export required data from the database. 'REDCap' (Research
-Electronic Data Capture) is a secure, web-based software platform designed
-to support data capture for research studies, providing 1) an intuitive
-interface for validated data capture; 2) audit trails for tracking data
-manipulation and export procedures; 3) automated export procedures for
-seamless data downloads to common statistical packages; and 4) procedures
-for data integration and interoperability with external sources (Harris et
-al (2009) <doi:10.1016/j.jbi.2008.08.010>; Harris et al (2019)
-<doi:10.1016/j.jbi.2019.103208>).
+Casting metadata for REDCap database creation and handling of castellated
+data using repeated instruments and longitudinal projects in 'REDCap'.
+Keeps a focused data export approach, by allowing to only export required
+data from the database. Also for casting new REDCap databases based on
+datasets from other sources. Originally forked from the R part of
+'REDCapRITS' by Paul Egeler. See <https://github.com/pegeler/REDCapRITS>.
+'REDCap' (Research Electronic Data Capture) is a secure, web-based
+software platform designed to support data capture for research studies,
+providing 1) an intuitive interface for validated data capture; 2) audit
+trails for tracking data manipulation and export procedures; 3) automated
+export procedures for seamless data downloads to common statistical
+packages; and 4) procedures for data integration and interoperability with
+external sources (Harris et al (2009) <doi:10.1016/j.jbi.2008.08.010>;
+Harris et al (2019) <doi:10.1016/j.jbi.2019.103208>).
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-Rveg.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  Rveg
-%global packver   0.1.5
+%global packver   0.1.6
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.5
+Version:          0.1.6
 Release:          1%{?dist}%{?buildtag}
 Summary:          Digitization of Phytosociological Relevés
 

specs/R-CRAN-SVMMaj.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  SVMMaj
-%global packver   0.2.9.2
+%global packver   0.2.9.3
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.2.9.2
+Version:          0.2.9.3
 Release:          1%{?dist}%{?buildtag}
 Summary:          Implementation of the SVM-Maj Algorithm
 
@@ -19,6 +19,7 @@ Requires:         R-core >= 2.13.0
 BuildArch:        noarch
 BuildRequires:    R-stats 
 BuildRequires:    R-graphics 
+BuildRequires:    R-parallel 
 BuildRequires:    R-CRAN-reshape2 
 BuildRequires:    R-CRAN-scales 
 BuildRequires:    R-CRAN-gridExtra 
@@ -27,6 +28,7 @@ BuildRequires:    R-CRAN-ggplot2
 BuildRequires:    R-CRAN-kernlab 
 Requires:         R-stats 
 Requires:         R-graphics 
+Requires:         R-parallel 
 Requires:         R-CRAN-reshape2 
 Requires:         R-CRAN-scales 
 Requires:         R-CRAN-gridExtra