From alexl at users.sourceforge.net Mon Jan 7 08:37:35 2008 From: alexl at users.sourceforge.net (Alex Lancaster) Date: Mon, 07 Jan 2008 01:37:35 -0700 Subject: [Fedora-r-devel-list] problems with building R packages on rawhide Message-ID: <693ataf2uo.fsf@allele2.eebweb.arizona.edu> Hey folks, There seems to be problems with building any R packages with the version of R currently in rawhide. These packages build fine on F-8, e.g.: R-multtest (in review): http://koji.fedoraproject.org/koji/taskinfo?taskID=330245 R-Biobase (already in CVS): http://koji.fedoraproject.org/koji/taskinfo?taskID=330288 Alex From escobarebio at yahoo.com Mon Jan 7 17:49:28 2008 From: escobarebio at yahoo.com (D.Enrique ESCOBAR ESPINOZA) Date: Mon, 7 Jan 2008 09:49:28 -0800 (PST) Subject: [Fedora-r-devel-list] R packages In-Reply-To: <20080107170033.F2F1673945@hormel.redhat.com> Message-ID: <3857.47379.qm@web30505.mail.mud.yahoo.com> Hi I am happy to see your constant effort to improve fedora distro. Happy new year 2008 and I hope all your projects will be completed. Personally, I will be extremely happy seeing the following useful modules packaged: abind adSplit affxparser affy affycomp affydata affyio affylmGUI affypdnn affyPLM annaffy annotate arrayMagic Biobase bioDist Biostrings Bolstad BufferedMatrix BufferedMatrixMethods Category cMAP cyp450cdf DBI DynDoc ellipse gcrma genefilter GeneMeta geneplotter GeneR GGtools globaltest GO GOstats goTools gp53cdf gpls graph hgfocus hgfocuscdf hgfocusprobe hgu133a hgu133acdf hgu133aprobe hgu95av2 hgu95av2cdf hgu95av2probe Icens IDPmisc impute KEGG limma limmaGUI maanova makecdfenv marray matchprobes Matrix mgu74av2 mgu74av2cdf mgu74av2probe multtest pamr PFAM pvclust R2HTML RankProd RBGL R-BioC.sh R.cache RColorBrewer RCurl Rdbi RdbiPgSQL reposTools Rgraphviz R.huge RMySQL ROC R.oo RSPerl RSPython RSQLite RSvgDevice RSVGTipsDevice RUnit R.utils samr scatterplot3d siggenes sma som SparseM statmod tkrplot tkWidgets VR vsn widgetTools XML xtable YEAST cheers, Enrique ____________________________________________________________________________________ Be a better friend, newshound, and know-it-all with Yahoo! 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Try it now. http://mobile.yahoo.com/;_ylt=Ahu06i62sR8HDtDypao8Wcj9tAcJ From pingoufc4 at yahoo.fr Mon Jan 7 17:54:39 2008 From: pingoufc4 at yahoo.fr (pingou) Date: Mon, 07 Jan 2008 18:54:39 +0100 Subject: [Fedora-r-devel-list] R packages In-Reply-To: <3857.47379.qm@web30505.mail.mud.yahoo.com> References: <3857.47379.qm@web30505.mail.mud.yahoo.com> Message-ID: <4782675F.2090206@yahoo.fr> D.Enrique ESCOBAR ESPINOZA wrote: > Personally, I will be extremely happy seeing the following useful > modules packaged: > > abind > adSplit > affxparser > affy done > affycomp > affydata done > affyio done > affylmGUI > affypdnn > affyPLM done > annaffy done > annotate done > arrayMagic > Biobase done and present on fedora repo > bioDist > Biostrings done > Bolstad > BufferedMatrix done and present on fedora repo > BufferedMatrixMethods done and present on fedora repo > Category > cMAP > cyp450cdf > DBI > DynDoc done and present on fedora repo > ellipse > gcrma done > genefilter done > GeneMeta > geneplotter done > GeneR > GGtools > globaltest > GO done > GOstats > goTools > gp53cdf > gpls > graph > hgfocus > hgfocuscdf > hgfocusprobe > hgu133a done > hgu133acdf done > hgu133aprobe done > hgu95av2 done > hgu95av2cdf done > hgu95av2probe done > Icens > IDPmisc > impute > KEGG done > limma > limmaGUI > maanova done and approved for fedora repo > makecdfenv > marray > matchprobes done > Matrix > mgu74av2 > mgu74av2cdf > mgu74av2probe > multtest done > pamr > PFAM > pvclust > R2HTML done > RankProd > RBGL > R-BioC.sh > R.cache > RColorBrewer done > RCurl > Rdbi > RdbiPgSQL > reposTools > Rgraphviz done but not sure it works fine > R.huge > RMySQL > ROC > R.oo > RSPerl > RSPython > RSQLite done > RSvgDevice > RSVGTipsDevice > RUnit done > R.utils > samr > scatterplot3d > siggenes done > sma > som > SparseM > statmod > tkrplot > tkWidgets done and present on fedora repo > VR > vsn > widgetTools > XML done > xtable done I probably forgot some... You can find them there http://pingoured.dyndns.org/public/fedora/ Feel free to package the other :) Regards, P.Yves ___________________________________________________________________________ Yahoo! Mail r?invente le mail ! D?couvrez le nouveau Yahoo! Mail et son interface r?volutionnaire. http://fr.mail.yahoo.com From tcallawa at redhat.com Mon Jan 7 18:24:24 2008 From: tcallawa at redhat.com (Tom "spot" Callaway) Date: Mon, 07 Jan 2008 13:24:24 -0500 Subject: [Fedora-r-devel-list] problems with building R packages on rawhide In-Reply-To: <693ataf2uo.fsf@allele2.eebweb.arizona.edu> References: <693ataf2uo.fsf@allele2.eebweb.arizona.edu> Message-ID: <1199730264.22969.1.camel@localhost.localdomain> On Mon, 2008-01-07 at 01:37 -0700, Alex Lancaster wrote: > Hey folks, > > There seems to be problems with building any R packages with the > version of R currently in rawhide. Tracked this down as due to a change I made, where the INSTALL binary moved into R-devel in rawhide. I gave it some thought, and moved it back to R, because I can see that some users installing noarch bits from CRAN might expect that to work without the other R-devel bits installed. Fedora packages should still BuildRequires: R-devel though. ~spot