sync

specs/R-CRAN-CLVTools.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  CLVTools
-%global packver   0.11.1
+%global packver   0.11.2
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.11.1
+Version:          0.11.2
 Release:          1%{?dist}%{?buildtag}
 Summary:          Tools for Customer Lifetime Value Estimation
 

specs/R-CRAN-Certara.VPCResults.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  Certara.VPCResults
-%global packver   3.0.1
+%global packver   3.0.2
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          3.0.1
+Version:          3.0.2
 Release:          1%{?dist}%{?buildtag}
 Summary:          Generate Visual Predictive Checks (VPC) Using 'shiny'
 

specs/R-CRAN-Cyclops.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  Cyclops
-%global packver   3.4.1
+%global packver   3.5.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          3.4.1
+Version:          3.5.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Cyclic Coordinate Descent for Logistic, Poisson and Survival Analysis
 

specs/R-CRAN-GET.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  GET
-%global packver   1.0-3
+%global packver   1.0-4
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.0.3
+Version:          1.0.4
 Release:          1%{?dist}%{?buildtag}
 Summary:          Global Envelopes
 
@@ -50,8 +50,8 @@ test of correspondence of distribution functions), for central regions of
 functional or multivariate data (e.g. outlier detection, functional
 boxplot) and for global confidence and prediction bands (e.g. confidence
 band in polynomial regression, Bayesian posterior prediction). See
-Myllymäki and Mrkvička (2023) <doi:10.48550/arXiv.1911.06583>, Myllymäki
-et al. (2017) <doi:10.1111/rssb.12172>, Mrkvička and Myllymäki (2023)
+Myllymäki and Mrkvička (2024) <doi:10.18637/jss.v111.i03>, Myllymäki et
+al. (2017) <doi:10.1111/rssb.12172>, Mrkvička and Myllymäki (2023)
 <doi:10.1007/s11222-023-10275-7>, Mrkvička et al. (2016)
 <doi:10.1016/j.spasta.2016.04.005>, Mrkvička et al. (2017)
 <doi:10.1007/s11222-016-9683-9>, Mrkvička et al. (2020)
@@ -61,7 +61,7 @@ et al. (2017) <doi:10.1111/rssb.12172>, Mrkvička and Myllymäki (2023)
 <doi:10.1002/sim.9236>, Dai et al. (2022) <doi:10.5772/intechopen.100124>,
 Dvořák and Mrkvička (2022) <doi:10.1007/s00180-021-01134-y>, Mrkvička et
 al. (2023) <doi:10.48550/arXiv.2309.04746>, and Konstantinou et al. (2024)
-<doi: 10.48550/arXiv.2403.01838>.
+<doi: 10.1007/s00180-024-01569-z>.
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-HDTSA.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  HDTSA
-%global packver   1.0.4
+%global packver   1.0.5
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.0.4
+Version:          1.0.5
 Release:          1%{?dist}%{?buildtag}
 Summary:          High Dimensional Time Series Analysis Tools
 
@@ -24,6 +24,8 @@ BuildRequires:    R-methods
 BuildRequires:    R-CRAN-MASS 
 BuildRequires:    R-CRAN-geigen 
 BuildRequires:    R-CRAN-jointDiag 
+BuildRequires:    R-CRAN-vars 
+BuildRequires:    R-CRAN-forecast 
 BuildRequires:    R-CRAN-RcppEigen 
 Requires:         R-stats 
 Requires:         R-CRAN-Rcpp 
@@ -33,22 +35,24 @@ Requires:         R-methods
 Requires:         R-CRAN-MASS 
 Requires:         R-CRAN-geigen 
 Requires:         R-CRAN-jointDiag 
+Requires:         R-CRAN-vars 
+Requires:         R-CRAN-forecast 
 
 %description
-Procedures for high-dimensional time series analysis including factor
-analysis proposed by Lam and Yao (2012) <doi:10.1214/12-AOS970> and Chang,
-Guo and Yao (2015) <doi:10.1016/j.jeconom.2015.03.024>,martingale
-difference test proposed by Chang, Jiang and Shao (2022)
-<doi:10.1016/j.jeconom.2022.09.001> in press,principal component analysis
-proposed by Chang, Guo and Yao (2018) <doi:10.1214/17-AOS1613>,
-identifying cointegration proposed by Zhang, Robinson and Yao (2019)
-<doi:10.1080/01621459.2018.1458620>, unit root test proposed by Chang,
-Cheng and Yao (2021) <doi:10.1093/biomet/asab034>, white noise test
-proposed by Chang, Yao and Zhou (2017) <doi:10.1093/biomet/asw066>,
-CP-decomposition for high-dimensional matrix time series proposed by
-Chang, He, Yang and Yao(2023) <doi:10.1093/jrsssb/qkac011> and Chang, Du,
-Huang and Yao (2024+), and Statistical inference for high-dimensional
-spectral density matrix porposed by Chang, Jiang, McElroy and Shao (2023)
+An implementation for high-dimensional time series analysis methods,
+including factor model for vector time series proposed by Lam and Yao
+(2012) <doi:10.1214/12-AOS970> and Chang, Guo and Yao (2015)
+<doi:10.1016/j.jeconom.2015.03.024>, martingale difference test proposed
+by Chang, Jiang and Shao (2023) <doi:10.1016/j.jeconom.2022.09.001>,
+principal component analysis for vector time series proposed by Chang, Guo
+and Yao (2018) <doi:10.1214/17-AOS1613>, cointegration analysis proposed
+by Zhang, Robinson and Yao (2019) <doi:10.1080/01621459.2018.1458620>,
+unit root test proposed by Chang, Cheng and Yao (2022)
+<doi:10.1093/biomet/asab034>, white noise test proposed by Chang, Yao and
+Zhou (2017) <doi:10.1093/biomet/asw066>, CP-decomposition for matrix time
+series proposed by Chang et al. (2023) <doi:10.1093/jrsssb/qkac011> and
+Chang et al. (2024) <doi:10.48550/arXiv.2410.05634>, and statistical
+inference for spectral density matrix proposed by Chang et al. (2022)
 <doi:10.48550/arXiv.2212.13686>.
 
 %prep

specs/R-CRAN-Hmisc.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  Hmisc
-%global packver   5.2-0
+%global packver   5.2-1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          5.2.0
+Version:          5.2.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Harrell Miscellaneous
 

specs/R-CRAN-multiDoE.spec → specs/R-CRAN-ILRCM.spec

@@ -1,15 +1,15 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
-%global packname  multiDoE
-%global packver   0.9.2
+%global packname  ILRCM
+%global packver   0.1.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.9.2
+Version:          0.1.0
 Release:          1%{?dist}%{?buildtag}
-Summary:          Multi-Criteria Design of Experiments for Optimal Design
+Summary:          Convert Irregular Longitudinal Data to Regular Intervals and Perform Clustering
 
-License:          CC BY 4.0
+License:          GPL-3
 URL:              https://cran.r-project.org/package=%{packname}
 Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz
 
@@ -18,21 +18,16 @@ BuildRequires:    R-devel >= 3.5.0
 Requires:         R-core >= 3.5.0
 BuildArch:        noarch
 BuildRequires:    R-CRAN-ggplot2 
-BuildRequires:    R-CRAN-magrittr 
-BuildRequires:    R-CRAN-plotly 
-BuildRequires:    R-CRAN-pracma 
+BuildRequires:    R-CRAN-scales 
 Requires:         R-CRAN-ggplot2 
-Requires:         R-CRAN-magrittr 
-Requires:         R-CRAN-plotly 
-Requires:         R-CRAN-pracma 
+Requires:         R-CRAN-scales 
 
 %description
-Multi-criteria design of experiments algorithm that simultaneously
-optimizes up to six different criteria ('I', 'Id', 'D', 'Ds', 'A' and
-'As'). The algorithm finds the optimal Pareto front and, if requested,
-selects a possible symmetrical design on it. The symmetrical design is
-selected based on two techniques: minimum distance with the Utopia point
-or the 'TOPSIS' approach.
+Convert irregularly spaced longitudinal data into regular intervals for
+further analysis, and perform clustering using advanced machine learning
+techniques. The package is designed for handling complex longitudinal
+datasets, optimizing them for research in healthcare, demography, and
+other fields requiring temporal data modeling.
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-MAP.spec

@@ -1,14 +1,15 @@
 %global __brp_check_rpaths %{nil}
+%global __requires_exclude ^libmpi
 %global packname  MAP
-%global packver   0.1.3
+%global packver   1.0.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.3
-Release:          3%{?dist}%{?buildtag}
+Version:          1.0.0
+Release:          1%{?dist}%{?buildtag}
 Summary:          Multimodal Automated Phenotyping
 
-License:          GPL-2
+License:          GPL-3
 URL:              https://cran.r-project.org/package=%{packname}
 Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz
 
@@ -17,9 +18,11 @@ BuildRequires:    R-devel >= 3.4.0
 Requires:         R-core >= 3.4.0
 BuildArch:        noarch
 BuildRequires:    R-CRAN-flexmix >= 2.3.14
-BuildRequires:    R-Matrix >= 1.2.10
+BuildRequires:    R-CRAN-Matrix >= 1.2.10
+BuildRequires:    R-CRAN-magrittr 
 Requires:         R-CRAN-flexmix >= 2.3.14
-Requires:         R-Matrix >= 1.2.10
+Requires:         R-CRAN-Matrix >= 1.2.10
+Requires:         R-CRAN-magrittr 
 
 %description
 Electronic health records (EHR) linked with biorepositories are a powerful
@@ -33,11 +36,20 @@ algorithm), fits an ensemble of latent mixture models on aggregated ICD
 and NLP counts along with healthcare utilization. The MAP algorithm yields
 a predicted probability of phenotype for each patient and a threshold for
 classifying subjects with phenotype yes/no (See Katherine P. Liao, et al.
-(2019) <doi:10.1101/587436>.).
+(2019) <doi:10.1093/jamia/ocz066>.).
 
 %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
 
@@ -47,6 +59,8 @@ 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-MEDesigns.spec

@@ -0,0 +1,57 @@
+%global __brp_check_rpaths %{nil}
+%global __requires_exclude ^libmpi
+%global packname  MEDesigns
+%global packver   1.0.0
+%global rlibdir   /usr/local/lib/R/library
+
+Name:             R-CRAN-%{packname}
+Version:          1.0.0
+Release:          1%{?dist}%{?buildtag}
+Summary:          Mating Environmental Designs
+
+License:          GPL (>= 2)
+URL:              https://cran.r-project.org/package=%{packname}
+Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz
+
+
+BuildRequires:    R-devel
+Requires:         R-core
+BuildArch:        noarch
+
+%description
+In breeding experiments, mating environmental (ME) designs are very
+popular as mating designs are directly implemented in the field
+environment using block or row-column designs. Here, three functions are
+given related to three new methods which will generate mating diallel
+cross designs (Hinkelmann and Kempthorne, 1963<doi:10.2307/2333899>) or
+mating environmental (ME) designs along with design parameters, C matrix,
+eigenvalues (EVs), degree of fractionations (DF) and canonical efficiency
+factor (CEF). Another one function is added to check the properties of a
+given ME diallel cross design.
+
+%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-NNS.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  NNS
-%global packver   10.9.3
+%global packver   10.9.4
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          10.9.3
+Version:          10.9.4
 Release:          1%{?dist}%{?buildtag}
 Summary:          Nonlinear Nonparametric Statistics
 

specs/R-CRAN-OpenRepGrid.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  OpenRepGrid
-%global packver   0.1.15
+%global packver   0.1.16
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.15
+Version:          0.1.16
 Release:          1%{?dist}%{?buildtag}
 Summary:          Tools to Analyze Repertory Grid Data
 

specs/R-CRAN-PaRe.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  PaRe
-%global packver   0.1.14
+%global packver   0.1.15
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.14
+Version:          0.1.15
 Release:          1%{?dist}%{?buildtag}
 Summary:          A Way to Perform Code Review or QA on Other Packages
 

specs/R-CRAN-PerRegMod.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  PerRegMod
-%global packver   4.4.2
+%global packver   4.4.3
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          4.4.2
+Version:          4.4.3
 Release:          1%{?dist}%{?buildtag}
 Summary:          Fitting Periodic Coefficients Linear Regression Models