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 two commands as root: formatdb -p F -i /usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.fasta 2>/dev/null cdbfasta -C /usr/share/microbiomeutil-data/RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta So I guess these commands need to be added to postinst, with a corresponding cleanup in postrm. Do you know where I can find an example/template for doing this properly/robustly? This also hilights that chimeraslayer needs to declare a direct dependency on the blast2 package. Cheers, TIM On Wed, 2013-06-05 at 09:25 +0100, Andreas Tille wrote: > Hi, > > On Wed, Jun 05, 2013 at 08:34:14AM +0200, "Steffen Möller" wrote: > > > > microbiomeutil (20101212-2) unstable; urgency=low > > Done. > > > We all do not like working with epochs, I presume. > > I personally do not have a problem with epochs but I respect your > feelings. :-) > > > I would also like to point > > to the backports.debian.org page on packaging instructions > > at http://backports.debian.org/Contribute/#index5h3 > > Good hint. I was also wondering whether it is a good idea to use the > "ubuntu" string inside BioLinux packages. As a (plain) Ubuntu user > I would be a bit confused to see this name in the version if a package > is not really part of Ubuntu but just an Ubuntu derivative. So if > I were you and I would create versions for BioLinux most probably > this would be the best idea for versioning: > > <version>~biolinux-<pkgversion> or > <version>-0biolinux<pkgversion> > > A positive side effect is that people who stumbly by chance about such > package will notice the BioLinux string and might become interested in > it ... > > Kind regards > > Andreas. > -- Tim Booth <tbo...@ceh.ac.uk> NERC Environmental Bioinformatics Centre Centre for Ecology and Hydrology Maclean Bldg, Benson Lane Crowmarsh Gifford Wallingford, England OX10 8BB http://nebc.nerc.ac.uk +44 1491 69 2705 -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/1370431656.6820.419.camel@balisaur
