package-announce November 2011

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Fedora 15 Update: R-abind-1.3.0-1.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

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Fedora 15 Update: R-mvtnorm-0.9.9991-1.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

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Fedora 15 Update: graphviz-2.26.3-6.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

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Fedora 15 Update: R-qtl-1.21.2-2.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

-------------------------------------------------------------------------------- Fedora Update Notification FEDORA-2011-15950 2011-11-15 23:42:05 -------------------------------------------------------------------------------- Name : R-qtl Product : Fedora 15 Version : 1.21.2 Release : 2.fc15 URL : http://www.rqtl.org/ Summary : Tools for analyzing QTL experiments Description : R-qtl is an extensible, interactive environment for mapping quantitative trait loci (QTLs) in experimental crosses. Our goal is to make complex QTL mapping methods widely accessible and allow users to focus on modeling rather than computing. A key component of computational methods for QTL mapping is the hidden Markov model (HMM) technology for dealing with missing genotype data. We have implemented the main HMM algorithms, with allowance for the presence of genotyping errors, for backcrosses, intercrosses, and phase-known four-way crosses. The current version of R-qtl includes facilities for estimating genetic maps, identifying genotyping errors, and performing single-QTL genome scans and two-QTL, two-dimensional genome scans, by interval mapping (with the EM algorithm), Haley-Knott regression, and multiple imputation. All of this may be done in the presence of covariates (such as sex, age or treatment). One may also fit higher-order QTL models by multiple imputation and Haley-Knott regression. -------------------------------------------------------------------------------- Update Information: Update R to 2.14.0. This required a mass rebuild of R components. -------------------------------------------------------------------------------- ChangeLog: * Tue Nov 8 2011 Tom Callaway <spot(a)fedoraproject.org> - 1.21.2-2 - rebuild for R 2.14.0 * Wed Jun 29 2011 Mattias Ellert <mattias.ellert(a)fysast.uu.se> - 1.21.2-1 - New upstream release -------------------------------------------------------------------------------- References: [ 1 ] Bug #751003 - New version of R 2.14.0 is available https://bugzilla.redhat.com/show_bug.cgi?id=751003 [ 2 ] Bug #753188 - Review Request: R-rtracklayer - R interface to genome browsers and their annotation tracks https://bugzilla.redhat.com/show_bug.cgi?id=753188 [ 3 ] Bug #753181 - Review Request: R-RCurl - General network (HTTP/FTP) client interface for R https://bugzilla.redhat.com/show_bug.cgi?id=753181 [ 4 ] Bug #753182 - Review Request: R-biomaRt - R Interface to BioMart databases https://bugzilla.redhat.com/show_bug.cgi?id=753182 [ 5 ] Bug #753185 - Review Request: R-Rcompression - R Package for in-memory compression https://bugzilla.redhat.com/show_bug.cgi?id=753185 -------------------------------------------------------------------------------- This update can be installed with the "yum" update program. Use su -c 'yum update R-qtl' at the command line. For more information, refer to "Managing Software with yum", available at http://docs.fedoraproject.org/yum/. All packages are signed with the Fedora Project GPG key. More details on the GPG keys used by the Fedora Project can be found at https://fedoraproject.org/keys --------------------------------------------------------------------------------

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Fedora 15 Update: R-nws-1.7.0.1-3.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

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Fedora 15 Update: R-2.14.0-3.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

-------------------------------------------------------------------------------- Fedora Update Notification FEDORA-2011-15950 2011-11-15 23:42:05 -------------------------------------------------------------------------------- Name : R Product : Fedora 15 Version : 2.14.0 Release : 3.fc15 URL : http://www.r-project.org Summary : A language for data analysis and graphics Description : This is a metapackage that provides both core R userspace and all R development components. R is a language and environment for statistical computing and graphics. R is similar to the award-winning S system, which was developed at Bell Laboratories by John Chambers et al. It provides a wide variety of statistical and graphical techniques (linear and nonlinear modelling, statistical tests, time series analysis, classification, clustering, ...). R is designed as a true computer language with control-flow constructions for iteration and alternation, and it allows users to add additional functionality by defining new functions. For computationally intensive tasks, C, C++ and Fortran code can be linked and called at run time. -------------------------------------------------------------------------------- Update Information: Update R to 2.14.0. This required a mass rebuild of R components. -------------------------------------------------------------------------------- ChangeLog: * Tue Nov 8 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.14.0-3 - No inconsolata for EL * Mon Nov 7 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.14.0-2 - add texinfo-tex to Requires for -devel package * Wed Nov 2 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.14.0-1 - update to 2.14.0 * Fri Oct 7 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.13.2-1 - update to 2.13.2 * Mon Sep 12 2011 Michel Salim <salimma(a)fedoraproject.org> - 2.13.1-5 - rebuild for libicu 4.8.x * Tue Aug 9 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.13.1-4 - fix salimma's scriptlets to be on -core instead of the metapackage * Tue Aug 9 2011 Michel Salim <salimma(a)fedoraproject.org> - 2.13.1-3 - Symlink LaTeX files, and rehash on package change when possible (# 630835) * Mon Aug 8 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.13.1-2 - add BuildRequires: less * Mon Jul 11 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.13.1-1 - update to 2.13.1 -------------------------------------------------------------------------------- References: [ 1 ] Bug #751003 - New version of R 2.14.0 is available https://bugzilla.redhat.com/show_bug.cgi?id=751003 [ 2 ] Bug #753188 - Review Request: R-rtracklayer - R interface to genome browsers and their annotation tracks https://bugzilla.redhat.com/show_bug.cgi?id=753188 [ 3 ] Bug #753181 - Review Request: R-RCurl - General network (HTTP/FTP) client interface for R https://bugzilla.redhat.com/show_bug.cgi?id=753181 [ 4 ] Bug #753182 - Review Request: R-biomaRt - R Interface to BioMart databases https://bugzilla.redhat.com/show_bug.cgi?id=753182 [ 5 ] Bug #753185 - Review Request: R-Rcompression - R Package for in-memory compression https://bugzilla.redhat.com/show_bug.cgi?id=753185 -------------------------------------------------------------------------------- This update can be installed with the "yum" update program. Use su -c 'yum update R' at the command line. For more information, refer to "Managing Software with yum", available at http://docs.fedoraproject.org/yum/. All packages are signed with the Fedora Project GPG key. More details on the GPG keys used by the Fedora Project can be found at https://fedoraproject.org/keys --------------------------------------------------------------------------------

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Fedora 15 Update: rpy-2.2.4-1.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

-------------------------------------------------------------------------------- Fedora Update Notification FEDORA-2011-15950 2011-11-15 23:42:05 -------------------------------------------------------------------------------- Name : rpy Product : Fedora 15 Version : 2.2.4 Release : 1.fc15 URL : http://rpy.sourceforge.net Summary : Python interface to the R language Description : RPy provides a robust Python interface to the R programming language. It can manage all kinds of R objects and can execute arbitrary R functions. All the errors from the R language are converted to Python exceptions. -------------------------------------------------------------------------------- Update Information: Update R to 2.14.0. This required a mass rebuild of R components. -------------------------------------------------------------------------------- ChangeLog: * Wed Nov 9 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.2.4-1 - update to 2.2.4 - rebuild for R 2.14.0 * Fri Oct 7 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.2.3-1 - update to 2.2.3 - rebuild for R 2.13.2 * Mon Jul 11 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.2.1-2 - add BuildRequires: readline-devel * Mon Jul 11 2011 Tom Callaway <spot(a)fedoraproject.org> - 2.2.1-1 - update to 2.2.1, note R at 2.13.1 - spec file modernization -------------------------------------------------------------------------------- References: [ 1 ] Bug #751003 - New version of R 2.14.0 is available https://bugzilla.redhat.com/show_bug.cgi?id=751003 [ 2 ] Bug #753188 - Review Request: R-rtracklayer - R interface to genome browsers and their annotation tracks https://bugzilla.redhat.com/show_bug.cgi?id=753188 [ 3 ] Bug #753181 - Review Request: R-RCurl - General network (HTTP/FTP) client interface for R https://bugzilla.redhat.com/show_bug.cgi?id=753181 [ 4 ] Bug #753182 - Review Request: R-biomaRt - R Interface to BioMart databases https://bugzilla.redhat.com/show_bug.cgi?id=753182 [ 5 ] Bug #753185 - Review Request: R-Rcompression - R Package for in-memory compression https://bugzilla.redhat.com/show_bug.cgi?id=753185 -------------------------------------------------------------------------------- This update can be installed with the "yum" update program. Use su -c 'yum update rpy' at the command line. For more information, refer to "Managing Software with yum", available at http://docs.fedoraproject.org/yum/. All packages are signed with the Fedora Project GPG key. More details on the GPG keys used by the Fedora Project can be found at https://fedoraproject.org/keys --------------------------------------------------------------------------------

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Fedora 15 Update: R-zoo-1.7.6-2.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

-------------------------------------------------------------------------------- Fedora Update Notification FEDORA-2011-15950 2011-11-15 23:42:05 -------------------------------------------------------------------------------- Name : R-zoo Product : Fedora 15 Version : 1.7.6 Release : 2.fc15 URL : http://cran.r-project.org/web/packages/zoo/index.html Summary : Z's ordered observations for irregular time series Description : An S3 class with methods for totally ordered indexed observations. It is particularly aimed at irregular time series of numeric vectors/matrices and factors. zoo's key design goals are independence of a particular index/date/ time class and consistency with with ts and base R by providing methods to extend standard generics. -------------------------------------------------------------------------------- Update Information: Update R to 2.14.0. This required a mass rebuild of R components. -------------------------------------------------------------------------------- ChangeLog: * Tue Nov 8 2011 Tom Callaway <spot(a)fedoraproject.org> 1.7.6-2 - disable tests on el4 - add el conditional for tex BR * Tue Nov 8 2011 Tom Callaway <spot(a)fedoraproject.org> 1.7.6-1 - convert to new model - rebuild for 2.14.0 * Mon Nov 7 2011 Orion Poplawski <orion(a)cora.nwra.com> 1.7-6 - Update to 1.7-6 - No longer noarch -------------------------------------------------------------------------------- References: [ 1 ] Bug #751003 - New version of R 2.14.0 is available https://bugzilla.redhat.com/show_bug.cgi?id=751003 [ 2 ] Bug #753188 - Review Request: R-rtracklayer - R interface to genome browsers and their annotation tracks https://bugzilla.redhat.com/show_bug.cgi?id=753188 [ 3 ] Bug #753181 - Review Request: R-RCurl - General network (HTTP/FTP) client interface for R https://bugzilla.redhat.com/show_bug.cgi?id=753181 [ 4 ] Bug #753182 - Review Request: R-biomaRt - R Interface to BioMart databases https://bugzilla.redhat.com/show_bug.cgi?id=753182 [ 5 ] Bug #753185 - Review Request: R-Rcompression - R Package for in-memory compression https://bugzilla.redhat.com/show_bug.cgi?id=753185 -------------------------------------------------------------------------------- This update can be installed with the "yum" update program. Use su -c 'yum update R-zoo' at the command line. For more information, refer to "Managing Software with yum", available at http://docs.fedoraproject.org/yum/. All packages are signed with the Fedora Project GPG key. More details on the GPG keys used by the Fedora Project can be found at https://fedoraproject.org/keys --------------------------------------------------------------------------------

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Fedora 15 Update: R-DBI-0.2.5-3.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

1 0

Fedora 15 Update: scalapack-1.7.5-14.fc15
by updates＠fedoraproject.org 29 Nov '11

29 Nov '11

-------------------------------------------------------------------------------- Fedora Update Notification FEDORA-2011-15950 2011-11-15 23:42:05 -------------------------------------------------------------------------------- Name : scalapack Product : Fedora 15 Version : 1.7.5 Release : 14.fc15 URL : http://www.netlib.org/lapack-dev/ Summary : A subset of LAPACK routines redesigned for heterogeneous computing Description : The ScaLAPACK (or Scalable LAPACK) library includes a subset of LAPACK routines redesigned for distributed memory MIMD parallel computers. It is currently written in a Single-Program-Multiple-Data style using explicit message passing for inter-processor communication. It assumes matrices are laid out in a two-dimensional block cyclic decomposition. ScaLAPACK is designed for heterogeneous computing and is portable on any computer that supports MPI or PVM. Like LAPACK, the ScaLAPACK routines are based on block-partitioned algorithms in order to minimize the frequency of data movement between different levels of the memory hierarchy. (For such machines, the memory hierarchy includes the off-processor memory of other processors, in addition to the hierarchy of registers, cache, and local memory on each processor.) The fundamental building blocks of the ScaLAPACK library are distributed memory versions (PBLAS) of the Level 1, 2 and 3 BLAS, and a set of Basic Linear Algebra Communication Subprograms (BLACS) for communication tasks that arise frequently in parallel linear algebra computations. In the ScaLAPACK routines, all inter-processor communication occurs within the PBLAS and the BLACS. One of the design goals of ScaLAPACK was to have the ScaLAPACK routines resemble their LAPACK equivalents as much as possible. -------------------------------------------------------------------------------- Update Information: Update R to 2.14.0. This required a mass rebuild of R components. -------------------------------------------------------------------------------- ChangeLog: * Wed Aug 3 2011 Jussi Lehtola <jussilehtola(a)fedoraproject.org> - 1.7.5-14 - Bump spec. * Wed Aug 3 2011 Jussi Lehtola <jussilehtola(a)fedoraproject.org> - 1.7.5-13 - Honor MPI guidelines wrt placement of libraries. - Drop unnecessary module file. - A few rpmlint fixes. -------------------------------------------------------------------------------- References: [ 1 ] Bug #751003 - New version of R 2.14.0 is available https://bugzilla.redhat.com/show_bug.cgi?id=751003 [ 2 ] Bug #753188 - Review Request: R-rtracklayer - R interface to genome browsers and their annotation tracks https://bugzilla.redhat.com/show_bug.cgi?id=753188 [ 3 ] Bug #753181 - Review Request: R-RCurl - General network (HTTP/FTP) client interface for R https://bugzilla.redhat.com/show_bug.cgi?id=753181 [ 4 ] Bug #753182 - Review Request: R-biomaRt - R Interface to BioMart databases https://bugzilla.redhat.com/show_bug.cgi?id=753182 [ 5 ] Bug #753185 - Review Request: R-Rcompression - R Package for in-memory compression https://bugzilla.redhat.com/show_bug.cgi?id=753185 -------------------------------------------------------------------------------- This update can be installed with the "yum" update program. Use su -c 'yum update scalapack' at the command line. For more information, refer to "Managing Software with yum", available at http://docs.fedoraproject.org/yum/. All packages are signed with the Fedora Project GPG key. More details on the GPG keys used by the Fedora Project can be found at https://fedoraproject.org/keys --------------------------------------------------------------------------------

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package-announce November 2011