Cannot get PyMOL_Observer to work on MacOS

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    • #1165

        The PyMOL_Mover is working but PyMOL_Observer() complains. Hope you can help:

        MacOS 10.7.3, 64 bit system

        Python 2.7.1 (r271:86832, Jul 31 2011, 19:30:53)
        Type “copyright”, “credits” or “license” for more information.

        IPython 0.12 — An enhanced Interactive Python.
        ? -> Introduction and overview of IPython’s features.
        %quickref -> Quick reference.
        help -> Python’s own help system.
        object? -> Details about ‘object’, use ‘object??’ for extra details.

        In [1]: from rosetta import *
        In [2]: init()
        Found rosetta_database at /Users/cno/software/PyRosetta.MacOSX.Lion-r47452.64Bit/rosetta_database, using it…
        PyRosetta 2.011 [r47452] retrieved from:
        (C) Copyright Rosetta Commons Member Institutions.
        Created in JHU by Sergey Lyskov and PyRosetta Team.

        core.init: Mini-Rosetta version 47452 from
        core.init: command: app -database /Users/cno/software/PyRosetta.MacOSX.Lion-r47452.64Bit/rosetta_database -ex1 -ex2aro
        core.init: ‘RNG device’ seed mode, using ‘/dev/urandom’, seed=1996275085 seed_offset=0 real_seed=1996275085
        core.init.random: RandomGenerator:init: Normal mode, seed=1996275085 RG_type=mt19937

        In [3]: pyobs = PyMOL_Observer()

        TypeError Traceback (most recent call last)
        /Users/cno/software/PyRosetta.MacOSX.Lion-r47452.64Bit/ in ()
        —-> 1 pyobs = PyMOL_Observer()

        /Users/cno/software/PyRosetta.MacOSX.Lion-r47452.64Bit/rosetta/__init__.pyc in __init__(self, keep_history)
        994 def __init__(self, keep_history=False):
        995 rosetta.core.pose.PosePyObserver.__init__(self)
        –> 996 self.pymol = rosetta.PyMOL_Mover(keep_history=keep_history)

        TypeError: __init__() got an unexpected keyword argument ‘keep_history’


      • #6662

          Thank you for reporting this! I fixed this error, so next build will have working version. Here the work-around that could be used now: Instead of creating Observer object directly use this function:
          rosetta.protocols.moves.AddPyMolObserver(core::pose::Pose &p, bool keep_history=false, core::Real update_interval=0), alternatively you can edit line 996 in and change it to:

          self.pymol = rosetta.PyMOL_Mover()

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