[Debichem-devel] Bug#511810: pymol: Alignments broken due to wrong patch to BLOSUM matrix

[Manuel Prinz]

Package: pymol
Version: 1.1-1
Severity: normal

Hi,

structural alignments do not work in Pymol because it tries to find the needed
BLOSUM matrix in /usr/share/pymol/pymol/matrices/BLOSUM62, but it is located
in /usr/share/pymol/matrices/BLOSUM62. (Notice the extra "pymol" in the first
path.)

I did not dive into that since I needed a quick fix and a symlink did the
trick.

Best regards
Manuel

-- System Information:
Debian Release: 5.0
  APT prefers testing
  APT policy: (500, 'testing'), (500, 'stable'), (200, 'unstable')
Architecture: amd64 (x86_64)

Kernel: Linux 2.6.26-1-amd64 (SMP w/2 CPU cores)
Locale: LANG=de_DE.UTF-8, LC_CTYPE=de_DE.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash

Versions of packages pymol depends on:
ii  freeglut3              2.4.0-6.1         OpenGL Utility Toolkit
ii  libc6                  2.7-16            GNU C Library: Shared libraries
ii  libfreetype6           2.3.7-2           FreeType 2 font engine, shared lib
ii  libgcc1                1:4.3.2-1.1       GCC support library
ii  libgl1-mesa-glx [libgl 7.0.3-7           A free implementation of the OpenG
ii  libglu1-mesa [libglu1] 7.0.3-7           The OpenGL utility library (GLU)
ii  libpng12-0             1.2.27-2          PNG library - runtime
ii  libstdc++6             4.3.2-1.1         The GNU Standard C++ Library v3
ii  python                 2.5.2-3           An interactive high-level object-o
ii  python-pmw             1.3.2-3           Pmw -- Python MegaWidgets
ii  python-support         0.8.4             automated rebuilding support for P
ii  python-tk              2.5.2-1           Tkinter - Writing Tk applications 
ii  zlib1g                 1:1.2.3.3.dfsg-12 compression library - runtime

Versions of packages pymol recommends:
ii  apbs                          1.0.0-2    Adaptive Poisson Boltzmann Solver

pymol suggests no packages.

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