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cran4linux · Nov 11, 2024 · 7042bbf · 7042bbf
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diff --git a/specs/R-CRAN-CodelistGenerator.spec b/specs/R-CRAN-CodelistGenerator.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  CodelistGenerator
-%global packver   3.2.1
+%global packver   3.3.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          3.2.1
+Version:          3.3.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Identify Relevant Clinical Codes and Evaluate Their Use
 
@@ -32,9 +32,8 @@ BuildRequires:    R-CRAN-visOmopResults >= 0.3.0
 BuildRequires:    R-CRAN-omopgenerics >= 0.2.2
 BuildRequires:    R-CRAN-purrr 
 BuildRequires:    R-CRAN-lubridate 
-BuildRequires:    R-CRAN-RJSONIO 
 BuildRequires:    R-CRAN-vctrs 
-BuildRequires:    R-CRAN-lifecycle 
+BuildRequires:    R-CRAN-RJSONIO 
 Requires:         R-CRAN-cli >= 3.1.0
 Requires:         R-CRAN-checkmate >= 2.0.0
 Requires:         R-CRAN-magrittr >= 2.0.0
@@ -50,9 +49,8 @@ Requires:         R-CRAN-visOmopResults >= 0.3.0
 Requires:         R-CRAN-omopgenerics >= 0.2.2
 Requires:         R-CRAN-purrr 
 Requires:         R-CRAN-lubridate 
-Requires:         R-CRAN-RJSONIO 
 Requires:         R-CRAN-vctrs 
-Requires:         R-CRAN-lifecycle 
+Requires:         R-CRAN-RJSONIO 
 
 %description
 Generate a candidate code list for the Observational Medical Outcomes

diff --git a/specs/R-CRAN-CohortSurvival.spec b/specs/R-CRAN-CohortSurvival.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  CohortSurvival
-%global packver   0.5.2
+%global packver   0.6.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.5.2
+Version:          0.6.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Estimate Survival from Common Data Model Cohorts
 
@@ -17,6 +17,7 @@ Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz
 BuildRequires:    R-devel
 Requires:         R-core
 BuildArch:        noarch
+BuildRequires:    R-CRAN-survival >= 3.7.0
 BuildRequires:    R-CRAN-CDMConnector >= 1.3.0
 BuildRequires:    R-CRAN-rlang >= 0.4.11
 BuildRequires:    R-CRAN-visOmopResults >= 0.3.0
@@ -30,12 +31,13 @@ BuildRequires:    R-CRAN-magrittr
 BuildRequires:    R-CRAN-lubridate 
 BuildRequires:    R-CRAN-broom 
 BuildRequires:    R-CRAN-PatientProfiles 
-BuildRequires:    R-CRAN-survival 
 BuildRequires:    R-CRAN-scales 
 BuildRequires:    R-CRAN-stringr 
 BuildRequires:    R-CRAN-tibble 
 BuildRequires:    R-CRAN-tidyr 
 BuildRequires:    R-CRAN-purrr 
+BuildRequires:    R-CRAN-lifecycle 
+Requires:         R-CRAN-survival >= 3.7.0
 Requires:         R-CRAN-CDMConnector >= 1.3.0
 Requires:         R-CRAN-rlang >= 0.4.11
 Requires:         R-CRAN-visOmopResults >= 0.3.0
@@ -49,12 +51,12 @@ Requires:         R-CRAN-magrittr
 Requires:         R-CRAN-lubridate 
 Requires:         R-CRAN-broom 
 Requires:         R-CRAN-PatientProfiles 
-Requires:         R-CRAN-survival 
 Requires:         R-CRAN-scales 
 Requires:         R-CRAN-stringr 
 Requires:         R-CRAN-tibble 
 Requires:         R-CRAN-tidyr 
 Requires:         R-CRAN-purrr 
+Requires:         R-CRAN-lifecycle 
 
 %description
 Estimate survival using data mapped to the Observational Medical Outcomes

diff --git a/specs/R-CRAN-GeoModels.spec b/specs/R-CRAN-GeoModels.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  GeoModels
-%global packver   2.0.7
+%global packver   2.0.8
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          2.0.7
+Version:          2.0.8
 Release:          1%{?dist}%{?buildtag}
 Summary:          Procedures for Gaussian and Non Gaussian Geostatistical (Large) Data Analysis
 
@@ -35,7 +35,6 @@ BuildRequires:    R-CRAN-lamW
 BuildRequires:    R-CRAN-nabor 
 BuildRequires:    R-CRAN-hypergeo 
 BuildRequires:    R-CRAN-VGAM 
-BuildRequires:    R-CRAN-data.table 
 BuildRequires:    R-CRAN-foreach 
 BuildRequires:    R-CRAN-future 
 BuildRequires:    R-CRAN-doFuture 
@@ -60,7 +59,6 @@ Requires:         R-CRAN-lamW
 Requires:         R-CRAN-nabor 
 Requires:         R-CRAN-hypergeo 
 Requires:         R-CRAN-VGAM 
-Requires:         R-CRAN-data.table 
 Requires:         R-CRAN-foreach 
 Requires:         R-CRAN-future 
 Requires:         R-CRAN-doFuture 

diff --git a/specs/R-CRAN-PakPMICS2018.spec b/specs/R-CRAN-PakPMICS2018.spec
@@ -1,15 +1,15 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  PakPMICS2018
-%global packver   1.1.0
+%global packver   1.2.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.1.0
+Version:          1.2.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Multiple Indicator Cluster Survey (MICS) 2017-18 Data for Punjab, Pakistan
 
-License:          GPL-2 | GPL-3
+License:          GPL-3
 URL:              https://cran.r-project.org/package=%{packname}
 Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz
 

diff --git a/specs/R-CRAN-ProbBreed.spec b/specs/R-CRAN-ProbBreed.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  ProbBreed
-%global packver   1.0.4.3
+%global packver   1.0.4.4
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.0.4.3
+Version:          1.0.4.4
 Release:          1%{?dist}%{?buildtag}
 Summary:          Probability Theory for Selecting Candidates in Plant Breeding
 

diff --git a/specs/R-CRAN-Rcssplot.spec b/specs/R-CRAN-Rcssplot.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  Rcssplot
-%global packver   1.0.0
+%global packver   1.1.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.0.0
+Version:          1.1.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Styling of Graphics using Cascading Style Sheets
 

diff --git a/specs/R-CRAN-RoBTT.spec b/specs/R-CRAN-RoBTT.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  RoBTT
-%global packver   1.3.0
+%global packver   1.3.1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.3.0
+Version:          1.3.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Robust Bayesian T-Test
 
@@ -41,17 +41,19 @@ Requires:         R-CRAN-Rdpack
 Requires:         R-CRAN-rstantools
 
 %description
-An implementation of Bayesian model-averaged t-test that allows users to
-draw inference about the presence vs absence of the effect, heterogeneity
-of variances, and outliers. The 'RoBTT' packages estimates model ensembles
-of models created as a combination of the competing hypotheses and uses
-Bayesian model-averaging to combine the models using posterior model
-probabilities. Users can obtain the model-averaged posterior distributions
-and inclusion Bayes factors which account for the uncertainty in the data
-generating process (Maier et al., 2022, <doi:10.31234/osf.io/d5zwc>).
-Users can define a wide range of informative priors for all parameters of
-interest. The package provides convenient functions for summary,
-visualizations, and fit diagnostics.
+An implementation of Bayesian model-averaged t-tests that allows users to
+draw inferences about the presence versus absence of an effect, variance
+heterogeneity, and potential outliers. The 'RoBTT' package estimates
+ensembles of models created by combining competing hypotheses and applies
+Bayesian model averaging using posterior model probabilities. Users can
+obtain model-averaged posterior distributions and inclusion Bayes factors,
+accounting for uncertainty in the data-generating process (Maier et al.,
+2024, <doi:10.3758/s13423-024-02590-5>). The package also provides a
+truncated likelihood version of the model-averaged t-test, enabling users
+to exclude potential outliers without introducing bias (Godmann et al.,
+2024, <doi:10.31234/osf.io/j9f3s>). Users can specify a wide range of
+informative priors for all parameters of interest. The package offers
+convenient functions for summary, visualization, and fit diagnostics.
 
 %prep
 %setup -q -c -n %{packname}

diff --git a/specs/R-CRAN-SegEnvIneq.spec b/specs/R-CRAN-SegEnvIneq.spec
@@ -0,0 +1,60 @@
+%global __brp_check_rpaths %{nil}
+%global __requires_exclude ^libmpi
+%global packname  SegEnvIneq
+%global packver   1.2
+%global rlibdir   /usr/local/lib/R/library
+
+Name:             R-CRAN-%{packname}
+Version:          1.2
+Release:          1%{?dist}%{?buildtag}
+Summary:          Environmental Inequality Indices Based on Segregation Measures
+
+License:          GPL-2 | GPL-3
+URL:              https://cran.r-project.org/package=%{packname}
+Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz
+
+
+BuildRequires:    R-devel >= 4.4.0
+Requires:         R-core >= 4.4.0
+BuildArch:        noarch
+BuildRequires:    R-CRAN-OasisR >= 3.1.1
+BuildRequires:    R-CRAN-spdep >= 1.3.6
+BuildRequires:    R-CRAN-sf >= 1.0.16
+BuildRequires:    R-CRAN-outliers >= 0.15
+Requires:         R-CRAN-OasisR >= 3.1.1
+Requires:         R-CRAN-spdep >= 1.3.6
+Requires:         R-CRAN-sf >= 1.0.16
+Requires:         R-CRAN-outliers >= 0.15
+
+%description
+A set of segregation-based indices and randomization methods to make
+robust environmental inequality assessments, as described in Schaeffer and
+Tivadar (2019) "Measuring Environmental Inequalities: Insights from the
+Residential Segregation Literature" <doi:10.1016/j.ecolecon.2019.05.009>.
+
+%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-UPG.spec b/specs/R-CRAN-UPG.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  UPG
-%global packver   0.3.4
+%global packver   0.3.5
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.3.4
+Version:          0.3.5
 Release:          1%{?dist}%{?buildtag}
 Summary:          Efficient Bayesian Algorithms for Binary and Categorical Data Regression Models
 

diff --git a/specs/R-CRAN-bootES.spec b/specs/R-CRAN-bootES.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  bootES
-%global packver   1.3.0
+%global packver   1.3.1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.3.0
+Version:          1.3.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Bootstrap Confidence Intervals on Effect Sizes
 

diff --git a/specs/R-CRAN-ctrdata.spec b/specs/R-CRAN-ctrdata.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  ctrdata
-%global packver   1.19.4
+%global packver   1.19.5
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.19.4
+Version:          1.19.5
 Release:          1%{?dist}%{?buildtag}
 Summary:          Retrieve and Analyze Clinical Trials in Public Registers
 
@@ -18,7 +18,7 @@ BuildRequires:    R-devel
 Requires:         R-core
 BuildArch:        noarch
 BuildRequires:    R-CRAN-curl >= 5.1.0
-BuildRequires:    R-CRAN-nodbi >= 0.10.0
+BuildRequires:    R-CRAN-nodbi >= 0.10.7
 BuildRequires:    R-CRAN-jsonlite 
 BuildRequires:    R-CRAN-httr 
 BuildRequires:    R-CRAN-clipr 
@@ -34,7 +34,7 @@ BuildRequires:    R-CRAN-readr
 BuildRequires:    R-CRAN-digest 
 BuildRequires:    R-CRAN-countrycode 
 Requires:         R-CRAN-curl >= 5.1.0
-Requires:         R-CRAN-nodbi >= 0.10.0
+Requires:         R-CRAN-nodbi >= 0.10.7
 Requires:         R-CRAN-jsonlite 
 Requires:         R-CRAN-httr 
 Requires:         R-CRAN-clipr 

diff --git a/specs/R-CRAN-data.table.threads.spec b/specs/R-CRAN-data.table.threads.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  data.table.threads
-%global packver   1.0.0
+%global packver   1.0.1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.0.0
+Version:          1.0.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Analyze Multi-Threading Performance for 'data.table' Functions
 

diff --git a/specs/R-CRAN-ggreveal.spec b/specs/R-CRAN-ggreveal.spec
@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  ggreveal
-%global packver   0.1.3
+%global packver   0.1.4
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.3
+Version:          0.1.4
 Release:          1%{?dist}%{?buildtag}
 Summary:          Reveal a 'ggplot' Incrementally
 
@@ -21,15 +21,13 @@ BuildRequires:    R-CRAN-cli
 BuildRequires:    R-CRAN-dplyr 
 BuildRequires:    R-CRAN-ggplot2 
 BuildRequires:    R-CRAN-ggplotify 
-BuildRequires:    R-CRAN-lemon 
 BuildRequires:    R-CRAN-rlang 
 BuildRequires:    R-CRAN-stringr 
 BuildRequires:    R-CRAN-tidyr 
 Requires:         R-CRAN-cli 
 Requires:         R-CRAN-dplyr 
 Requires:         R-CRAN-ggplot2 
 Requires:         R-CRAN-ggplotify 
-Requires:         R-CRAN-lemon 
 Requires:         R-CRAN-rlang 
 Requires:         R-CRAN-stringr 
 Requires:         R-CRAN-tidyr 

diff --git a/specs/R-CRAN-inline.spec b/specs/R-CRAN-inline.spec
@@ -1,10 +1,11 @@
 %global __brp_check_rpaths %{nil}
+%global __requires_exclude ^libmpi
 %global packname  inline
-%global packver   0.3.19
+%global packver   0.3.20
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.3.19
+Version:          0.3.20
 Release:          1%{?dist}%{?buildtag}
 Summary:          Functions to Inline C, C++, Fortran Function Calls from R
 
@@ -32,6 +33,8 @@ 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' {} \;