This bug was fixed in the package bamf - 0.5.0+13.10.20130628-0ubuntu1

---------------
bamf (0.5.0+13.10.20130628-0ubuntu1) saucy; urgency=low

  [ Marco Trevisan (Treviño) ]
  * BamfDaemon, LibBamf: Make the BamfView's name a property, deprecated
    method+signal.
  * BamfDaemon, LibBamf: add icon property to store the BamfView icon
    and notify about its changes. New tests added.
  * BamfMatcher: ignore registered .desktop files that are in an
    autostart-folder. (LP: #1193502)
  * BamfApplication: try to use a window icon if the computed icon
    belongs to a "generic" app Added a bunch of new BamfApplication
    tests for icon. (LP: #768931, #1007383)
  * BamfFactory: remove the local_views list, we don't need that anymore
    Having them tracked on allocated_views list is enough, and fixes an
    issue as explained on bug #1193559. (LP: #1193449, #1193559)

  [ Ubuntu daily release ]
  * Automatic snapshot from revision 560
 -- Ubuntu daily release <[email protected]>   Fri, 28 Jun 2013 
02:02:32 +0000

** Changed in: bamf (Ubuntu)
       Status: New => Fix Released

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https://bugs.launchpad.net/bugs/1007383

Title:
  Unity does not honour window icons where there is no .desktop file.

Status in BAMF Application Matching Framework:
  Fix Committed
Status in Unity:
  Invalid
Status in wxWidgets crossplatform GUI toolkit:
  Unknown
Status in “bamf” package in Ubuntu:
  Fix Released
Status in “unity” package in Ubuntu:
  Invalid
Status in “wxwidgets2.8” package in Ubuntu:
  Confirmed

Bug description:
  Hi,

  Unity ignores the application icons of programs that were not launched
  using .desktop files. Instead, every application just gets a gray icon
  with a question mark.

  This minimal python program opens a window and defines an icon for the
  application. In the gnome or kde window managers and task lists the
  application appears with the correct icon.

  from PyQt4 import QtGui
  fname = "/usr/share/icons/gnome/32x32/apps/accessories-calculator.png"
  app  = QtGui.QApplication([])
  app.setWindowIcon(QtGui.QIcon(fname))
  dialog = QtGui.QDialog()
  dialog.setWindowTitle("Application with Icon")
  dialog.show()
  app.exec_()

  ProblemType: Bug
  DistroRelease: Ubuntu 12.04
  Package: unity 5.12-0ubuntu1
  ProcVersionSignature: Ubuntu 3.2.0-24.38-generic-pae 3.2.16
  Uname: Linux 3.2.0-24-generic-pae i686
  ApportVersion: 2.0.1-0ubuntu8
  Architecture: i386
  CompizPlugins: 
[core,bailer,detection,composite,opengl,decor,gnomecompat,move,place,compiztoolbox,imgpng,vpswitch,mousepoll,regex,grid,session,unitymtgrabhandles,snap,resize,zoom,animation,wall,workarounds,expo,fade,scale,unityshell]
  Date: Fri Jun  1 11:24:33 2012
  InstallationMedia: Ubuntu 11.10 "Oneiric Ocelot" - Beta i386 (20110909)
  SourcePackage: unity
  UpgradeStatus: Upgraded to precise on 2012-05-18 (14 days ago)

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