Re: Microbiomeutil and chimeraslayer as dependency of Qiime

2013-06-10 Thread Tim Booth
... actually, these index files are pretty small. I'll just generate them at build time and put them in the .deb. Much simpler than messing with postinst. Will push patches to SVN shortly. TIM On Wed, 2013-06-05 at 12:27 +0100, Tim Booth wrote: > Hi Andreas, > > I spoke too soon on ChimeraSl

Re: Microbiomeutil and chimeraslayer as dependency of Qiime

2013-06-10 Thread Tim Booth
Hi Andreas, I spoke too soon on ChimeraSlayer. I've just run the test scripts provided with QIIME and it is crashing because at some point it tries to write to the /usr/share/microbiomeutil-data/RESOURCES directory. It looks like this can be fixed by pre-computing some indices, by running these

Re: Microbiomeutil and chimeraslayer as dependency of Qiime

2013-06-10 Thread Tim Booth
Hi, > While in the first > moment I was thinking there is no need to care I now wonder whether it > might have some effect on Ubuntu / BioLinux users. If I might leave the > lower version it might happen that these users just do not "see" the new > version. But I want my versions of packages t

Re: Microbiomeutil and chimeraslayer as dependency of Qiime

2013-06-10 Thread Tim Booth
Hi Andreas, I've pushed a tiny fix to one patch so that wigeon runs - not sure why it was like that in the first place. I'm not sure what was supposed to be happening with the symlinks but it makes sense to me that the individual packages install lower-case executables and the microbiomeutil pack

Re: Microbiomeutil and chimeraslayer as dependency of Qiime

2013-06-10 Thread Tim Booth
Hi Andreas, Thanks for sorting the microbiomeutil stuff. It will be nice to see that getting into Debian, and I agree that UChime can wait until someone actually asks for it or until new OSS releases start appearing. FYI, I'm working on the following in the next week or so: 1) Acacia - https://

Re: duplicate work on ggplot2 ?

2013-06-10 Thread Charles Plessy
Le Sun, Jun 09, 2013 at 10:10:45AM +0200, Andreas Tille a écrit : > > If you finally decide to use Git please make sure you drop a file > > trunk/packages/R/r-cran-ggplot2/trunk/README.status > > in SVN with content > > --- > Format: 1 > Status: git > SVNDeleteRevision: > URL: git://git.debi

I am new

2013-06-10 Thread Benjamin Eikel
Hello Debian Med team, I joined the Alioth group debian-med some minutes ago (user name "benjamin- guest"). I am going to help out with some small R packages (e.g., r-cran- munsell, r-cran-scales) that are required to update r-cran-ggplot2 to the current upstream version. I am using Debian for ov