sync

specs/R-CRAN-AllelicSeries.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  AllelicSeries
-%global packver   0.1.1.1
+%global packver   0.1.1.2
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.1.1
+Version:          0.1.1.2
 Release:          1%{?dist}%{?buildtag}
 Summary:          Allelic Series Test
 

specs/R-CRAN-DEoptimR.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  DEoptimR
-%global packver   1.1-3
+%global packver   1.1-3-1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.1.3
+Version:          1.1.3.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Differential Evolution Optimization in Pure R
 

specs/R-CRAN-INFOSET.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  INFOSET
-%global packver   4.0.6
+%global packver   4.1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          4.0.6
+Version:          4.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Computing a New Informative Distribution Set of Asset Returns
 
@@ -45,7 +45,15 @@ the distribution occurs below the median of the financial returns, with
 their boundary termed as the “change point" of the mixture. The process
 concludes when no further change points are detected. The outcome
 encompasses parameters of the leftmost mixture distributions and change
-points of the analyzed financial time series.
+points of the analyzed financial time series. The functionalities of the
+INFOSET package include: (i) modelling asset distribution detecting the
+parameters which describe left tail behaviour (infoset function), (ii)
+clustering, (iii) labeling of the financial series for predictive and
+classification purposes through a Left Risk measure based on the first
+change point (LR_cp function) (iv) portfolio construction
+(ptf_construction function). The package also provide a specific function
+to construct rolling windows of different length size and overlapping
+time.
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-collapse.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  collapse
-%global packver   2.0.17
+%global packver   2.0.18
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          2.0.17
+Version:          2.0.18
 Release:          1%{?dist}%{?buildtag}
 Summary:          Advanced and Fast Data Transformation
 

specs/R-CRAN-forestdata.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  forestdata
-%global packver   0.1.0
+%global packver   0.2.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.0
+Version:          0.2.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Download Forestry Data
 
@@ -28,8 +28,9 @@ BuildRequires:    R-CRAN-terra
 BuildRequires:    R-CRAN-stringi 
 BuildRequires:    R-CRAN-rlang 
 BuildRequires:    R-CRAN-archive 
-BuildRequires:    R-CRAN-RODBC 
 BuildRequires:    R-CRAN-foreign 
+BuildRequires:    R-CRAN-crayon 
+BuildRequires:    R-CRAN-lifecycle 
 Requires:         R-CRAN-rvest 
 Requires:         R-CRAN-sf 
 Requires:         R-CRAN-stringr 
@@ -41,8 +42,9 @@ Requires:         R-CRAN-terra
 Requires:         R-CRAN-stringi 
 Requires:         R-CRAN-rlang 
 Requires:         R-CRAN-archive 
-Requires:         R-CRAN-RODBC 
 Requires:         R-CRAN-foreign 
+Requires:         R-CRAN-crayon 
+Requires:         R-CRAN-lifecycle 
 
 %description
 Functions for downloading forestry and land use data for use in spatial

specs/R-CRAN-jti.spec

@@ -1,10 +1,11 @@
 %global __brp_check_rpaths %{nil}
+%global __requires_exclude ^libmpi
 %global packname  jti
-%global packver   0.8.4
+%global packver   1.0.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.8.4
+Version:          1.0.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Junction Tree Inference
 
@@ -26,7 +27,8 @@ Requires:         R-CRAN-sparta
 %description
 Minimal and memory efficient implementation of the junction tree algorithm
 using the Lauritzen-Spiegelhalter scheme; S. L. Lauritzen and D. J.
-Spiegelhalter (1988) <https://www.jstor.org/stable/2345762?seq=1>.
+Spiegelhalter (1988) <https://www.jstor.org/stable/2345762?seq=1>. The jti
+package is part of the paper <doi:10.18637/jss.v111.i02>.
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-mlr3learners.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  mlr3learners
-%global packver   0.8.0
+%global packver   0.9.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.8.0
+Version:          0.9.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Recommended Learners for 'mlr3'
 

specs/R-CRAN-multilevelcoda.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  multilevelcoda
-%global packver   1.3.0.2
+%global packver   1.3.1
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          1.3.0.2
+Version:          1.3.1
 Release:          1%{?dist}%{?buildtag}
 Summary:          Estimate Bayesian Multilevel Models for Compositional Data
 
@@ -38,7 +38,7 @@ BuildRequires:    R-CRAN-DT
 BuildRequires:    R-CRAN-loo 
 BuildRequires:    R-CRAN-bayesplot 
 BuildRequires:    R-CRAN-emmeans 
-BuildRequires:    R-CRAN-insight 
+BuildRequires:    R-CRAN-posterior 
 Requires:         R-CRAN-data.table >= 1.12.0
 Requires:         R-stats 
 Requires:         R-CRAN-compositions 
@@ -60,14 +60,16 @@ Requires:         R-CRAN-DT
 Requires:         R-CRAN-loo 
 Requires:         R-CRAN-bayesplot 
 Requires:         R-CRAN-emmeans 
-Requires:         R-CRAN-insight 
+Requires:         R-CRAN-posterior 
 
 %description
 Implement Bayesian Multilevel Modelling for compositional data in a
 multilevel framework. Compute multilevel compositional data and Isometric
 log ratio (ILR) at between and within-person levels, fit Bayesian
 multilevel models for compositional predictors and outcomes, and run
-post-hoc analyses such as isotemporal substitution models.
+post-hoc analyses such as isotemporal substitution models. References: Le,
+Stanford, Dumuid, and Wiley (2024) <doi:10.48550/arXiv.2405.03985>, Le,
+Dumuid, Stanford, and Wiley (2024) <doi:10.48550/arXiv.2411.12407>.
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-nlmixr2est.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  nlmixr2est
-%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:          Nonlinear Mixed Effects Models in Population PK/PD, Estimation Routines
 

specs/R-CRAN-phylolm.hp.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  phylolm.hp
-%global packver   0.0-1
+%global packver   0.0-2
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.0.1
+Version:          0.0.2
 Release:          1%{?dist}%{?buildtag}
 Summary:          Hierarchical Partitioning of R2 for Phylogenetic Linear Regression
 
@@ -28,8 +28,8 @@ Requires:         R-CRAN-vegan
 
 %description
 Conducts hierarchical partitioning to calculate individual contributions
-of phylogenetic tree and predictors towards total R2 for phylogenetic
-linear regression models.
+of phylogenetic tree and predictors (groups) towards total R2 for
+phylogenetic linear regression models.
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-poolfstat.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  poolfstat
-%global packver   2.2.0
+%global packver   3.0.0
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          2.2.0
+Version:          3.0.0
 Release:          1%{?dist}%{?buildtag}
 Summary:          Computing f-Statistics and Building Admixture Graphs Based on Allele Count or Pool-Seq Read Count Data
 
@@ -26,7 +26,6 @@ BuildRequires:    R-parallel
 BuildRequires:    R-CRAN-DiagrammeR 
 BuildRequires:    R-CRAN-ape 
 BuildRequires:    R-stats 
-BuildRequires:    R-CRAN-zoo 
 BuildRequires:    R-CRAN-Ryacas 
 BuildRequires:    R-CRAN-Matrix 
 BuildRequires:    R-CRAN-RcppProgress 
@@ -42,24 +41,23 @@ Requires:         R-parallel
 Requires:         R-CRAN-DiagrammeR 
 Requires:         R-CRAN-ape 
 Requires:         R-stats 
-Requires:         R-CRAN-zoo 
 Requires:         R-CRAN-Ryacas 
 Requires:         R-CRAN-Matrix 
 Requires:         R-CRAN-RcppProgress 
 Requires:         R-CRAN-progress 
 Requires:         R-CRAN-nnls 
 
 %description
-Functions for the computation of f- and D-statistics (estimation of 'Fst',
-Patterson's 'F2', 'F3', 'F3*', 'F4' and D parameters) in population
-genomics studies from allele count or Pool-Seq read count data and for the
-fitting, building and visualization of admixture graphs. The package also
-includes several utilities to manipulate Pool-Seq data stored in standard
-format (e.g., such as 'vcf' files or 'rsync' files generated by the the
-'PoPoolation' software) and perform conversion to alternative format (as
-used in the 'BayPass' and 'SelEstim' software). As of version 2.0, the
-package also includes utilities to manipulate standard allele count data
-(e.g., stored in 'TreeMix', 'BayPass' or 'SelEstim' format).
+Functions for the computation of F-, f- and D-statistics (e.g., Fst,
+hierarchical F-statistics, Patterson's F2, F3, F3*, F4 and D parameters)
+in population genomics studies from allele count or Pool-Seq read count
+data and for the fitting, building and visualization of admixture graphs.
+The package also includes several utilities to manipulate Pool-Seq data
+stored in standard format (e.g., such as 'vcf' files or 'rsync' files
+generated by the the 'PoPoolation' software) and perform conversion to
+alternative format (as used in the 'BayPass' and 'SelEstim' software). As
+of version 2.0, the package also includes utilities to manipulate standard
+allele count data (e.g., stored in TreeMix, BayPass and SelEstim format).
 
 %prep
 %setup -q -c -n %{packname}

specs/R-CRAN-predicts.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  predicts
-%global packver   0.1-16
+%global packver   0.1-17
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.1.16
+Version:          0.1.17
 Release:          1%{?dist}%{?buildtag}
 Summary:          Spatial Prediction Tools
 

specs/R-CRAN-qtl2fst.spec

@@ -1,11 +1,11 @@
 %global __brp_check_rpaths %{nil}
 %global __requires_exclude ^libmpi
 %global packname  qtl2fst
-%global packver   0.28
+%global packver   0.30
 %global rlibdir   /usr/local/lib/R/library
 
 Name:             R-CRAN-%{packname}
-Version:          0.28
+Version:          0.30
 Release:          1%{?dist}%{?buildtag}
 Summary:          Database Storage of Genotype Probabilities for QTL Mapping