[Debian-med-packaging] Bug#733398: Bowtie and tophat fail to build with seqan >= 1.4

[Andreas Tille]

Hi Manuel,

since we uploaded seqan 1.4.x packages to Debian the packages bowtie and
tophat failed to build while the build went fine with seqan 1.3.  Since
I personally have no idea how to fix this and neither bowtie nor tophat
developers answered to our request I wonder whether some seqan developers
who should know the API very good could possibly create a patch to get
the two packages builded again.  You can see the build failure log here:

   bowtie:
   https://bugs.debian.org/733398

   tophat:
   https://bugs.debian.org/733352

Please also let us know if you have no idea how to fix this.  In this
case we would use a last fallback and reinject a versioned seqan1.3
package in addition to the latest version of seqan.

Any help would be really appreciated

      Andreas.

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