r-devel August 2009

r-devel@lists.fedoraproject.org

6 participants
9 discussions

collaborating on ggplot2 ?
by Jack Tanner 07 Sep '09

07 Sep '09

5 15

Re: [Fedora-r-devel-list] R 2.9.2 updates are ready
by Martyn Plummer 28 Aug '09

28 Aug '09

Up until now we have been building our own R RPMS for EL4 and EL5 for distribution via CRAN. To be precise, Bob Kinney at Harvard (cc'ed) has been building them. Lately I stepped in to rebuild the 32-bit EL4/5 RPMS using mock. With R 2.9.1 and R 2.9.2 you have built EPEL RPMS for R at the same time as the Fedora ones. Does this mean we can give up building our own? Is it OK for me to grab the EPEL RPMS and put them on CRAN before they get pushed to stable? Thanks Martyn On Tue, 2009-08-25 at 11:27 -0400, Tom "spot" Callaway wrote: > Fedora 10: > https://admin.fedoraproject.org/updates/rpy-1.0.3-10.fc10,R-2.9.2-1.fc10 > Fedora 11: > https://admin.fedoraproject.org/updates/rpy-2.0.3-4.fc11,R-2.9.2-1.fc11 > > (Note: EPEL updates sit in testing for two weeks, or until enough people > give them positive karma to push to stable) > EL-4: https://admin.fedoraproject.org/updates/R-2.9.2-1.el4 > EL-5: https://admin.fedoraproject.org/updates/R-2.9.2-1.el5 > > ~spot ----------------------------------------------------------------------- This message and its attachments are strictly confidential. If you are not the intended recipient of this message, please immediately notify the sender and delete it. Since its integrity cannot be guaranteed, its content cannot involve the sender's responsibility. Any misuse, any disclosure or publication of its content, either whole or partial, is prohibited, exception made of formally approved use -----------------------------------------------------------------------

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small issue with yum-presto and R update (config files changed)
by José Abílio Matos 27 Aug '09

27 Aug '09

While updating to R-2.9.2 I noticed the following in yum: Downloading Packages: Setting up and reading Presto delta metadata updates-testing/prestodelta | 111 kB 00:00 updates/prestodelta | 487 kB 00:01 Processing delta metadata /usr/lib/R/etc/Makeconf: contents have been changed /usr/lib/R/etc/ldpaths: contents have been changed /usr/share/doc/R-2.9.1/html/search/index.txt: contents have been changed delta does not match installed data FWIW I did not change those files other than updating other R packages trough yum. I remember to have the same problem ever since I have installed yum- presto when updating R. Is it possible to solve this in the spec file? Should I report this to bugzilla? Regards, -- José Abílio

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R 2.9.2 updates are ready
by Tom Callaway 25 Aug '09

25 Aug '09

Fedora 10: https://admin.fedoraproject.org/updates/rpy-1.0.3-10.fc10,R-2.9.2-1.fc10 Fedora 11: https://admin.fedoraproject.org/updates/rpy-2.0.3-4.fc11,R-2.9.2-1.fc11 (Note: EPEL updates sit in testing for two weeks, or until enough people give them positive karma to push to stable) EL-4: https://admin.fedoraproject.org/updates/R-2.9.2-1.el4 EL-5: https://admin.fedoraproject.org/updates/R-2.9.2-1.el5 ~spot

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RMySQL spec file
by Jack Tanner 23 Aug '09

23 Aug '09

Hi, here's a spec file in case anyone wants to package up RMySQL. I'm hereby placing it in the public domain, so please modify as necessary, and don't even bother giving me credit. I'm not volunteering to be a maintainer myself. It passes rpmlint, it's tested only on CentOS 5, and it works for me. YMMV. I'm somewhat unsure about the BuildRequires. By the way, R2spec was a really good starting point, but I had to deviate from its suggestions in a couple of places. You could diff an R2spec-generated file and the one below if you're curious. -- CUT HERE -- %global packname RMySQL %global packrel 1 Name: R-%{packname} Version: 0.7 Release: 4%{?dist} Summary: R interface to the MySQL database Group: Applications/Engineering License: GPLv2 URL: http://cran.r-project.org/web/packages/RMySQL/ Source0: ftp://cran.r-project.org/pub/R/contrib/main/%{packname}_%{version}-%{releas… BuildRoot: %{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n) Requires(post): R Requires(postun): R BuildRequires: R-devel tetex-latex R >= R-2.8.0 R-methods R-DBI >= R-0.2-2 R-utils mysql-devel %description Database interface and MySQL driver for R. This version complies with the database interface definition as implemented in the package DBI 0.2-2. %prep %setup -q -c -n %{packname} %build %install rm -rf %{buildroot} mkdir -p %{buildroot}%{_libdir}/R/library %{_bindir}/R CMD INSTALL -l %{buildroot}%{_libdir}/R/library %{packname} test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so) rm -rf %{buildroot}%{_libdir}/R/library/R.css %check %{_bindir}/R CMD check %{packname} %clean rm -rf %{buildroot} %post %{_R_make_search_index} %postun %{_R_make_search_index} %files %defattr(-, root, root, -) %dir %{_libdir}/R/library/%{packname} %doc %{_libdir}/R/library/%{packname}/latex %doc %{_libdir}/R/library/%{packname}/doc %doc %{_libdir}/R/library/%{packname}/html %doc %{_libdir}/R/library/%{packname}/DESCRIPTION %doc %{_libdir}/R/library/%{packname}/man %doc %{_libdir}/R/library/%{packname}/NEWS %doc %{_libdir}/R/library/%{packname}/GPL %doc %{_libdir}/R/library/%{packname}/GPL %doc %{_libdir}/R/library/%{packname}/INSTALL %doc %{_libdir}/R/library/%{packname}/INSTALL.win %doc %{_libdir}/R/library/%{packname}/README %doc %{_libdir}/R/library/%{packname}/README.windows %doc %{_libdir}/R/library/%{packname}/THANKS %doc %{_libdir}/R/library/%{packname}/TODO %doc %{_libdir}/R/library/%{packname}/WindowsPath.txt %doc %{_libdir}/R/library/%{packname}/newFunctionNames.txt %{_libdir}/R/library/%{packname}/CONTENTS %{_libdir}/R/library/%{packname}/INDEX %{_libdir}/R/library/%{packname}/NAMESPACE %{_libdir}/R/library/%{packname}/Meta %{_libdir}/R/library/%{packname}/R %{_libdir}/R/library/%{packname}/R-ex %{_libdir}/R/library/%{packname}/help %{_libdir}/R/library/%{packname}/FindMySQLhome.R %{_libdir}/R/library/%{packname}/libs/RMySQL.so %changelog * Sun Aug 23 2009 Name <Mail> 0.7.4-1 - initial package for Fedora

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[Fwd: Re: TeX Live 2009 for Fedora]
by Pierre-Yves Chibon 20 Aug '09

20 Aug '09

FYI I will update R2spec to meet the new guidelines soon. Best regards, Pierre

2 2

version corrected
by Pierre-Yves Chibon 08 Aug '09

08 Aug '09

Dear list, Remi and I have patched the website to correct the version number that contained a '-'. You can thus go to [1] to check if you are up-to-date. Let me know if you face an error or a problem :) Best regards, Pierre [1] http://rpms.famillecollet.com/rpmphp/rpm.php?type=R

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Update the guidelines
by Pierre-Yves Chibon 04 Aug '09

04 Aug '09

Dear all, I would like to propose to update (or mention) some points in the R packaging guidelines. * Mention something about the tex files which are not utf-8 and don't necessarily have to be converted see: https://www.redhat.com/archives/fedora-devel-list/2009-January/msg00741.html * Mention something about the -devel package where the headers don't necessarily have to moved to %{_datadir} since R looks for them in %{_libdir}. see: https://www.redhat.com/archives/fedora-r-devel-list/2009-March/msg00001.html What is your opinion on these changes ? What is the process to propose such changes/updates ? Thanks, Best regards, Pierre

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R2spec v2.5.3
by Pierre-Yves Chibon 02 Aug '09

02 Aug '09

Dear list, As just announced on my blog I released a new version of R2spec and there is the changelog for this version: Version 2.5.3 -- 02nd Aug 2009 - Features added * Prints warning if summary is empty * Prints warning if description is empty * Add support for r-forge.net (option --rforge) * Add support for r-forge.r-project.org (option --rproject) * Add the prefix R- to the list of dependencies with a list of package to ignore (ie: R) * Add a default source0 and url if the bioconductor release is not set - Bugs correction * Does not add the 'Requires:' to the spec if they are empty * Changes the '-' into '.' if the version of the R library contains any '-' Package is available for F-10, F-11, rawhide, EPEL-4 and EPEL-5. Feel free to add some karma if you test it :) Thanks, Best regards, Pierre

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r-devel August 2009