[Debian-med-packaging] Bug#707059: tophat: Tophat 2.0.8-1 not working with bowtie 2.1.0

[Alexey Sergushichev]

Package: tophat
Version: 2.0.8-1
Severity: important

Tophat 2.0.8-1 has bad procedure of checking bowtie version, so id
doesn't work with bowtie 2.1.0. This bug was fixed in the upstream in
version 2.0.8b. Please, update the package from the upstream.


-- System Information:
Debian Release: 6.0.7
  APT prefers oldstable-updates
  APT policy: (500, 'oldstable-updates'), (500, 'oldstable'), (400, 'testing'), (100, 'unstable'), (1, 'experimental')
Architecture: amd64 (x86_64)

Kernel: Linux 3.2.0-3-amd64 (SMP w/6 CPU cores)
Locale: LANG=ru_RU.UTF-8, LC_CTYPE=ru_RU.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash

Versions of packages tophat depends on:
ii  bowtie                  1.0.0-3          ultrafast memory-efficient short r
ii  bowtie2                 2.1.0-1          ultrafast memory-efficient short r
ii  dpkg                    1.15.8.13        Debian package management system
ii  libboost-thread1.49.0   1.49.0-3.2       portable C++ multi-threading
ii  libc6                   2.13-38          Embedded GNU C Library: Shared lib
ii  libgcc1                 1:4.7.2-5        GCC support library
ii  libstdc++6              4.7.2-5          GNU Standard C++ Library v3
ii  python                  2.7.3-4          interactive high-level object-orie
ii  zlib1g                  1:1.2.3.4.dfsg-3 compression library - runtime

tophat recommends no packages.

Versions of packages tophat suggests:
ii  bowtie                        1.0.0-3    ultrafast memory-efficient short r
pn  cufflinks                     <none>     (no description available)

-- no debconf information