[Robast-commits] r1330 - in pkg/RobLoxBioC: . inst man

[noreply at r-forge.r-project.org]

Author: ruckdeschel
Date: 2025-01-12 03:25:59 +0100 (Sun, 12 Jan 2025)
New Revision: 1330

Modified:
   pkg/RobLoxBioC/DESCRIPTION
   pkg/RobLoxBioC/inst/CITATION
   pkg/RobLoxBioC/inst/NEWS
   pkg/RobLoxBioC/man/0RobLoxBioC-package.Rd
Log:
[RobLoxBioC] prepared version on trunk for submission; reference output
   RobLoxBioC-Ex.Rout.save needs to be recreated; (on my system, packages 
   'org.Hs.eg.db', 'illuminaHumanv3.db' failed at installation)


Modified: pkg/RobLoxBioC/DESCRIPTION
===================================================================
--- pkg/RobLoxBioC/DESCRIPTION	2025-01-12 02:04:14 UTC (rev 1329)
+++ pkg/RobLoxBioC/DESCRIPTION	2025-01-12 02:25:59 UTC (rev 1330)
@@ -1,10 +1,10 @@
 Package: RobLoxBioC
-Version: 1.2.2
-Date: 2024-02-11
+Version: 1.2.3
+Date: 2025-01-12
 Title: Infinitesimally Robust Estimators for Preprocessing -Omics Data
 Description: Functions for the determination of optimally robust influence curves and
-             estimators for preprocessing omics data, in particular gene expression data
-             (Kohl and Deigner (2010), <doi:10.1186/1471-2105-11-583>).
+            estimators for preprocessing omics data, in particular gene expression data (Kohl
+            and Deigner (2010), <doi:10.1186/1471-2105-11-583>).
 Depends: R(>= 3.4), methods, distr(>= 2.8.0), affy
 Imports: Biobase, BiocGenerics, beadarray, RobLox(>= 1.1.0), distrMod(>= 2.8.0), lattice,
             RColorBrewer, AnnotationDbi
@@ -16,4 +16,4 @@
 URL: https://r-forge.r-project.org/projects/robast/
 LastChangedDate: {$LastChangedDate$}
 LastChangedRevision: {$LastChangedRevision$}
-VCS/SVNRevision: 1214
+VCS/SVNRevision: 1329

Modified: pkg/RobLoxBioC/inst/CITATION
===================================================================
--- pkg/RobLoxBioC/inst/CITATION	2025-01-12 02:04:14 UTC (rev 1329)
+++ pkg/RobLoxBioC/inst/CITATION	2025-01-12 02:25:59 UTC (rev 1330)
@@ -1,6 +1,9 @@
-bibentry(bibtype="Article",
-         title = "{Preprocessing of gene expression data by optimally robust estimators}",
-         author = c(as.person("M. Kohl"), as.person("H.P. Deigner")),
+bibentry(
+   bibtype = "Article",
+   mheader = "To cite package RobLoxBioC in publications use:",
+      title = "{Preprocessing of gene expression data by optimally robust estimators}",
+         author = c(person("Matthias", "Kohl", comment = c(ORCID = "0000-0001-9514-8910")),
+                    person("H.P.", "Deigner")),
          journal = "BMC Bioinformatics",
          language = "English",
          year = 2010,

Modified: pkg/RobLoxBioC/inst/NEWS
===================================================================
--- pkg/RobLoxBioC/inst/NEWS	2025-01-12 02:04:14 UTC (rev 1329)
+++ pkg/RobLoxBioC/inst/NEWS	2025-01-12 02:25:59 UTC (rev 1330)
@@ -1,5 +1,5 @@
 ###############################################################################
-##  News: to package RobLox
+##  News: to package RobLoxBioC
 ###############################################################################
 
 (first two numbers of package versions do not necessarily reflect 
@@ -7,7 +7,17 @@
  RobAStXXX family as a whole in order to ease updating "depends" 
  information)
 
+######################################################################
+version 1.2.2
 #######################################
+
+under the hood
++ fixed some broken URLs and changed URLs from http to https where possible
++ changed encoding to UTF-8 and updated URL for r-forge project homepage
++ transformed CITATION file to new format, i.e., bibentry() instead of citEntry(),
+    person( .... ) (with ORCID where available) instead of as.person( .... )
+		
+########
 version 1.2.1
 #######################################
 

Modified: pkg/RobLoxBioC/man/0RobLoxBioC-package.Rd
===================================================================
--- pkg/RobLoxBioC/man/0RobLoxBioC-package.Rd	2025-01-12 02:04:14 UTC (rev 1329)
+++ pkg/RobLoxBioC/man/0RobLoxBioC-package.Rd	2025-01-12 02:25:59 UTC (rev 1330)
@@ -1,44 +1,44 @@
-\name{RobLoxBioC-package}
-\alias{RobLoxBioC-package}
-\alias{RobLoxBioC}
-\docType{package}
-\title{
-Infinitesimally robust estimators for preprocessing omics data
-}
-\description{
-Functions for the determination of optimally robust influence curves 
-and estimators for preprocessing omics data, in particular gene expression data
-(Kohl and Deigner (2010)).
-}
-\author{
-Matthias Kohl \email{Matthias.Kohl at stamats.de}\cr%
-Maintainer: Matthias Kohl  \email{matthias.kohl at stamats.de}}
-\references{
-  Kohl, M. (2005) \emph{Numerical Contributions to the Asymptotic Theory of Robustness}. 
-  Bayreuth: Dissertation.
-  
-  Kohl M. and Deigner H.P. (2010). Preprocessing of gene expression data by optimally 
-  robust estimators. \emph{BMC Bioinformatics}, 11:583. 
-  
-  M. Kohl, P. Ruckdeschel, and H. Rieder (2010). Infinitesimally Robust Estimation 
-  in General Smoothly Parametrized Models. \emph{Statistical Methods and Application}, 
-  \bold{19}(3):333-354. 
-  
-  Rieder, H. (1994) \emph{Robust Asymptotic Statistics}. New York: Springer.
-  
-  Rieder, H., Kohl, M. and Ruckdeschel, P. (2008) The Costs of not Knowing
-  the Radius. \emph{Statistical Methods and Applications} \bold{17}(1) 13-40.
-}
-\seealso{
-\code{\link[RobLox]{roblox}}, \code{\link[RobLox]{rowRoblox}}
-}
-\section{Package versions}{
-Note: The first two numbers of package versions do not necessarily reflect
- package-individual development, but rather are chosen for the
- RobAStXXX family as a whole in order to ease updating "depends"
- information.
-}
-\examples{
-library(RobLoxBioC)
-}
-\keyword{package}
+\name{RobLoxBioC-package}
+\alias{RobLoxBioC-package}
+\alias{RobLoxBioC}
+\docType{package}
+\title{
+Infinitesimally robust estimators for preprocessing omics data
+}
+\description{
+Functions for the determination of optimally robust influence curves 
+and estimators for preprocessing omics data, in particular gene expression data
+(Kohl and Deigner (2010)).
+}
+\author{
+Matthias Kohl \email{Matthias.Kohl at stamats.de}\cr%
+Maintainer: Matthias Kohl  \email{matthias.kohl at stamats.de}}
+\references{
+  Kohl, M. (2005) \emph{Numerical Contributions to the Asymptotic Theory of Robustness}. 
+  Bayreuth: Dissertation.
+  
+  Kohl M. and Deigner H.P. (2010). Preprocessing of gene expression data by optimally 
+  robust estimators. \emph{BMC Bioinformatics}, 11:583. 
+  
+  M. Kohl, P. Ruckdeschel, and H. Rieder (2010). Infinitesimally Robust Estimation 
+  in General Smoothly Parametrized Models. \emph{Statistical Methods and Application}, 
+  \bold{19}(3):333-354. 
+  
+  Rieder, H. (1994) \emph{Robust Asymptotic Statistics}. New York: Springer.
+  
+  Rieder, H., Kohl, M. and Ruckdeschel, P. (2008) The Costs of not Knowing
+  the Radius. \emph{Statistical Methods and Applications} \bold{17}(1) 13-40.
+}
+\seealso{
+\code{\link[RobLox]{roblox}}, \code{\link[RobLox]{rowRoblox}}
+}
+\section{Package versions}{
+Note: The first two numbers of package versions do not necessarily reflect
+ package-individual development, but rather are chosen for the
+ RobAStXXX family as a whole in order to ease updating "depends"
+ information.
+}
+\examples{
+library(RobLoxBioC)
+}
+\keyword{package}