Re: Please check new version of tophat

[Dominique Belhachemi <domibel@debian.org>]

On Sat, Oct 4, 2014 at 4:30 PM, Andreas Tille <andreas@an3as.eu> wrote:

Hi folks,

I tried to adapt the patches of the new version of tophat (2.0.13).
While the package build it creates an extra executable which is
installed to /usr/bin/samtools_0.1.18 which IMHO should be prevented.
Since I'm not that deeply involved in tophat I wonder whether somebody
else could test this new version since it is most probably what will
end up in our next stable release.

Hi Andreas,

Based on the changelog I would say that you can skip the 2.0.13 release.

----------------------------------------------------
TopHat 2.0.13 release 10/2/2014
Version 2.0.13 is a maintenance release with the following changes:

    removed SAMtools as an external dependency in order to avoid incompatibility issues with recent and future changes of SAMtools and its code library (an older, stable SAMtools version is now packaged with TopHat)

    fixed a few code compatibility issues when compiling on OSX 10.9
----------------------------------------------------

I wonder which versions of tophat/samtools are incompatible and why?

Best

-Dominique