[Debian-med-packaging] R 3.0.0 and required rebuilds of all reverse Depends: of R

Mon Apr 1 17:11:04 UTC 2013

Hi Dirk,

thanks for your continuous work on R.  If you feel that the current
point in time (freeze time) is no problem (from my perspective it is OK
- just mentioning it) I think uploading the R packages maintained by
Debian Science and Debian Med is fine.  Please make sure you commit the
changes to the according VCS (ACL permissions are set for DDs for both
VCS).

Kind regards

       Andreas.

On Sun, Mar 31, 2013 at 11:45:15AM -0500, Dirk Eddelbuettel wrote:
> 
> A new major release R 3.0.0 will come out on Wednesday April 3rd, as usual
> according the the release plan and announcements [1]. 
> 
> It contains major internal changes [2] and requires rebuilds of all R
> packages.  As I usually do, I started packaging pre-releases and rc
> candidates [3] based on March 24, 27 and 30 snapshots.
> 
> Michael Rutter, who tirelessly backports (most of) my Debian R packages to
> Ubuntu, has also made builds of these R packages [4].  
> 
> As for unstable, we have an issue as essentially all reverse-dependencies
> that are R packages will need to be rebuilt [5]. On testing, I get for
> 158 packages from `apt-cache rdepends r-base-core | grep -c r-cran-`. 
> 
> I maintain the core set ("r-recommended") and a bunch of others which I have
> rebuilt over the last two or three days:
> 
>    abind-1.4-0                quadprog-1.5-4     
>    boot-1.3-9                 Rcmdr-1.9-6           
>    cairoDevice-2.19           RColorBrewer-1.0-5 
>    car-2.0-16                 Rcpp-0.10.3           
>    chron-2.3-43               relimp-1.0-3          
>    class-7.3-7                rgl-0.93.928          
>    cluster-1.14.4             RGtk2-2.20.25         
>    codetools-0.2-8            rJava-0.9-4           
>    date-1.2.33                Rmpi-0.6-3            
>    DBI-0.2-5                  rms-3.6-3             
>    digest-0.6.3               RMySQL-0.9-3          
>    foreach-1.4.0              robustbase-0.9-7   
>    foreign-0.8.53             RODBC-1.3-6           
>    gdata-2.12.0               rpart-4.1-1           
>    getopt-1.19.1              Rserve-0.6-8.1     
>    gtools-2.7.1               rsprng-1.0            
>    KernSmooth-2.23-10         Rsymphony-0.1-15   
>    Hmisc-3.10-1               RUnit-0.4.26          
>    iterators-1.0.6            sandwich-2.2-10    
>    lattice-0.20-15            slam-0.1-28           
>    latticeExtra-0.6-24        sm-2.2-4.1            
>    lme4-0.999999-0            sn-0.4-17             
>    lmtest-0.9.30              snow-0.3.12        
>    lpSolve-5.6.7              spatial-7.3-6         
>    mgcv-1.7-22                stabledist-0.6-5   
>    MASS-7.3-26                strucchange-1.4-7  
>    Matrix-1.0-12              survival-2.37-4    
>    mvtnorm-0.9-9994           timeDate-2160.97   
>    mnormt-1.4-5               timeSeries-3000.96 
>    multicore-0.1-7            tkrplot-0.0.23     
>    multcomp-1.2-17            tseries-0.10-30    
>    nlme-3.1.109               urca-1.2-7            
>    nnet-7.3-6                 XML-3.96-1.1          
>    polspline-1.1.7            zoo-1.7-9          
> 
> and I should get to these over the next day or two
> 
>    doMC-1.3.0                 fPortfolio-2130.80 
>    doSNOW-1.0.6               fRegression-2160.77
>    effects-2.2.4              fTrading-2160.77   
>    fAsianOptions-3000.78      fUnitRoots-2160.77  
>    fAssets-2110.79            gmodels-2.15.3      
>    fBasics-2160.85            gplots-2.11.0       
>    fBonds-2160.76             gregmisc-2.1.2      
>    fCopulae-3000.79           hdf5-1.6.10         
>    fExoticOptions-2152.78     int64-1.1.2         
>    fExtremes-2160.78          its-1.1.8`8         
>    fGarch-2150.81             misc3d-0.8-4        
>    fImport-3000.82            nws-2.0.0.3         
>    fMultivar-2152.77          rggobi-2.1.19       
>    fNonlinear-2160.77         Rglpk-0.3-10        
>    fOptions-2160.82           RQuantlib-0.3.10    
> 				 
> Based on a simple script (running on testing rather than unstable) I get the
> following set of unique maintainers of related packages:
> 
>    Chris Lawrence <lawrencc at debian.org>
>    Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
>    Debian Science Maintainers <debian-science-maintainers at lists.alioth.debian.org>
>    Dirk Eddelbuettel <edd at debian.org>
>    Julian Gilbey <jdg at debian.org>
>    Philip Rinn <rinni at gmx.net>
>    The Debichem Group <debichem-devel at lists.alioth.debian.org>
> 
> and I am CCing everybody now to see if they could please rebuild the packages
> within a week or so.  Come next weekend we'll review and switch to direct
> email pings.
> 
> Comments, suggestions, ... most welcome.  Please CC me on replies as I am no
> longer subscribed to debian-devel.
> 
> Cheers, Dirk
> 
> 
> [1] http://developer.r-project.org
> [2] See the NEWS file; big one is overcoming vector index index limit 2^31-1  
> [3] http://changelogs.debian.net/r-base  (covers two of the three)
> [4] See his blog at http://www.personal.psu.edu/mar36/blogs/the_ubuntu_r_blog/blog/
>     and his post to the r-sig-debian list
> [5] All r-cran-* and r-bioc-* and ... package; embedding apps such as
>     rkward, postgresql-plr or cantor or may not need to be rebuilt
> 
> -- 
> Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com
> 
> -- 
> debian-science-maintainers mailing list
> debian-science-maintainers at lists.alioth.debian.org
> http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-science-maintainers
> 

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