pymol depends on python-numpy for autodock plugin

[Mike Carnegie]

$ pymol
...omitted...
Exception in plugin 'autodock' -- Traceback follows...
Traceback (most recent call last):
  File "/usr/lib/python2.7/dist-packages/pmg_tk/PMGApp.py", line 315, in initializePlugins
    __builtin__.__import__(mod_name)
  File "/usr/lib/python2.7/dist-packages/pmg_tk/startup/autodock.py", line 48, in <module>
    from numpy import *
ImportError: No module named numpy
Error: unable to initialize plugin 'autodock'.

The pymol version included in 12.04 includes the autodock plugin which relies on python-numpy. This is easily fixed by installing python-numpy. Which may not be apparent to some users.

The program appears to still function without the autodock plugin enabled. It is just missing in the menu.

ProblemType: Bug
DistroRelease: Ubuntu 12.04
Package: pymol 1.4.1-3
ProcVersionSignature: Ubuntu 3.2.0-23.36-generic 3.2.14
Uname: Linux 3.2.0-23-generic x86_64
ApportVersion: 2.0.1-0ubuntu14
Architecture: amd64
Date: Wed Nov 7 14:35:03 2012
InstallationMedia: Ubuntu 12.04 LTS "Precise Pangolin" - Release amd64 (20120425)
ProcEnviron:
 TERM=xterm
 PATH=(custom, no user)
 LANG=en_US.UTF-8
 SHELL=/bin/bash
SourcePackage: pymol
UpgradeStatus: No upgrade log present (probably fresh install)

[Launchpad Janitor (janitor)]

This bug was fixed in the package pymol - 1.6.0.0-1

---------------
pymol (1.6.0.0-1) unstable; urgency=low

  * New upstream prelease.

  [ Michael Banck ]
  * debian/patches/11_fix__cmd_import.patch: Removed, no longer needed.
  * debian/patches/26_subversion_updates.patch: Likewise.
  * debian/pymol.install: Install data and scripts directories under
    /usr/share/pymol, as intended by upstream.
  * debian/pymol.launch.in: Updated for new data path location.
  * debian/patches/05_examples_data_path.patch: Removed, no longer needed.
  * debian/patches/09_chempy_data_path.patch: Likewise.
  * debian/patches/13_activate_vmd_plugin.patch: Likewise.
  * debian/patches/17_cmyk_png_data_path.patch: Likewise.
  * debian/patches/19_blosum_matrix_path.patch: Likewise.
  * debian/patches/20_output_license_terms.patch: Likewise.
  * debian/patches/25_ignore_setup_clean_errors.patch: Likewise.
  * debian/rules (override_dh_auto_clean): Do not abort on failure and remove
  * redundant call to setup.py.
  * debian/patches/22_fix_pymol_import.patch: Change the value of $PYMOL_PATH
    to the one found by find_module('pymol').
  * debian/patches/28_no_data_install_in_python_path.patch: New patch, skips
    installation of the data (and examples, test) directories into the pymol
    path.
  * debian/patches/29_fix_path_to_splash.patch: New patch, changes search path
    for splash image from $PYMOL_PATH to $PYMOL_DATA.
  * debian/patches/series: Disable 24_autodock_plugin.patch for now, as it does
    work currently.
  * debian/control (Standards-Version): Bumped to 3.9.4.

  [ Daniel Leidert ]
  * debian/control (Uploaders): Removed myself.
    (Depends): Added python-numpy (LP: #1076104).
    (Suggests): Added chemical-mime-data.
  * debian/gnome-pymol.desktop: Dropped unused file.
  * debian/pymol.desktop (MimeType, Exec): Additions (LP: #1087265).
  * debian/pymol.launch.in: Environmental path variables (LP: #925445).
  * debian/upstream: Minor additions.

 -- Debichem Team <email address hidden> Thu, 08 Aug 2013 20:32:10 +0200