[chimera-dev] Chimera in windows: seeing samba mounted disk

Fri Apr 18 07:15:42 PDT 2008

Dear all,

I usual use chimera on my linux box, but for some practicities, I need
to use it in windows. 

I realized though that I can not access the disk F: of my windows box
which is a mounted disk from the linux one. Would it be difficult that
the file browser of chimera recognize samba mounted disk? Our is ther a
trick I miss?

All the best,
JD

On Wed, 2008-04-09 at 12:00 -0700, chimera-dev-request at cgl.ucsf.edu
wrote:
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> Today's Topics:
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>    1. Re: Multi-touch and Chimera (Tom Goddard)
>    2. Re: Multi-touch and Chimera (Tom Goddard)
> 
> 
> ----------------------------------------------------------------------
> 
> Message: 1
> Date: Tue, 08 Apr 2008 12:39:58 -0700
> From: Tom Goddard <goddard at cgl.ucsf.edu>
> Subject: Re: [chimera-dev] Multi-touch and Chimera
> To: Gergely Nagy <gergelynagy76 at gmail.com>
> Cc: chimera-dev at cgl.ucsf.edu
> Message-ID: <47FBCA0E.8090702 at cgl.ucsf.edu>
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
> 
> Hi Greg,
> 
>   Chimera is written in Python and C++.  The C++ is used for OpenGL 
> rendering and for optimizing calculations.  The event loop and user 
> interface is all in Python.  The touch events and the actions they 
> trigger should definitely be in Python.  It looks very reasonable to use 
> Boost Python to wrap the C++ touchlib library or parts of it to make it 
> accessible to Python.
> 
>     http://wiki.python.org/moin/boost.python/GettingStarted
> 
>     http://www.boost.org/doc/libs/1_35_0/libs/python/doc/index.html
> 
> We use an in-house wrapping program (WrapPy).  Wrapping C/C++ for Python 
> is often done with package called SWIG.
> 
>   We use the Tcl/Tk event loop using the Python/Tk interface module 
> called Tkinter.  You can put custom Tk event types such as touch events 
> in the event queue but I haven't figured out a way to do it.  The 
> trouble is that you typically will get an event from a callback in C/C++ 
> code.  I recently tried passing such an event (for a Space Navigator 
> 6-dof input device) to a Python routine.  It resulted in crashes because 
> Tkinter is designed so that only it can call Python code.  It has some 
> complicated thread locking code that releases a Python lock and my event 
> handler called into Python without having that Python lock, tried to do 
> some Tk call and crashed.  Probably the Python lock can be acquired in 
> the C/C++ callback, but then if that Python code does Tk calls to add an 
> event there may be additional problems with Tkinter's Tk lock which is 
> inaccessible.  So some work is needed to figure out how to get the C/C++ 
> callback events into the Tk event loop.  Once that is solved everything 
> can be done in Python with event handlers processing those Tk events to 
> cause any desired Chimera actions.
> 
>     Tom
> 
> 
> Gergely Nagy wrote:
> > Hi Tom,
> >
> > Thanks for your reply.
> > Our multi-touch interface won't work with touch-pads, since it is 
> > based on another technology.
> > The user will need to touch the actual object on the screen since 
> > there won't be any pointers. The interaction is direct between the 
> > user finger and the programs objects. So basically when the user 
> > touches a menu item for example, there is a sort of mouse clicked 
> > event at the given coordinates on the screen.
> > Talking about events, there exists a library written in C++ called 
> > Touchlib (http://nuigroup.com/touchlib/) that pass those touch events 
> > to any program written in C++ and this is what we would like to use. 
> > Of course in this case we will need to wrap that code to be able to 
> > use it in python. I thought using Boost 
> > (http://www.boost.org/users/index.html) for that.
> > I was asking you about the sources because at the end we should have 
> > something compiled and working. It doesn't matter if its not the 
> > latest version, what would be important is that we will be able to 
> > demonstrate the interface working. Would it be possible?
> >
> > Concerning the atom-atom distance, the user would zoom in on the part 
> > he is interested in, after he would choose the appropriate display 
> > form and then he would change from moving-zooming mode to selection 
> > mode and he would touch the atoms he would like to know the distance 
> > between. So you are right, visual feedback would be necessary, as it 
> > was the case with a mouse click.
> > So to sum up the interaction events, there would be something like 
> > finger_down, finger_up, dragging. And also these events are dispatched 
> > by touchlib, so we would need to implement them in Chimera.
> >
> > What do you think about it?
> >
> > Thanks a lot for your help!
> >
> > Regards,
> > Greg
> >
> >
> >
> > 2008/4/8, Tom Goddard <goddard at cgl.ucsf.edu 
> > <mailto:goddard at cgl.ucsf.edu>>:
> >
> >     Hi Greg,
> >
> >      Sounds neat.  Will a multi-touch interface work with a standard
> >     laptop touch-pad?
> >
> >      The source code for Chimera is on the web though it isn't up to date.
> >
> >       http://www.cgl.ucsf.edu/chimera/sourcecode.html
> >
> >     All of the functions you are interested in are implemented in
> >     Python code which is included in the distributed Chimera.  The
> >     Python code is in files (with ".py" suffix) in directories under
> >
> >       chimera/share
> >
> >     or on Mac under directory Chimera.app/Contents/Resources/share.
> >      But it is quite difficult to find the Chimera Python routines you
> >     need.  Our programming reference guide (automatically generated
> >     from code comments) is not too useful but we provide programming
> >     examples that might help.
> >
> >      
> >     http://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/Examples/index.html
> >
> >     The easiest approach is to ask us by email for the routines you
> >     need, e.g. list all chain identifiers, select chain given id,
> >     color equivalent to actions menu, move models, rotate models, show
> >     atom-atom distance, find atom under mouse, draw label....  Eric
> >     Pettersen is the most familiar with that code and what simple
> >     routines already exist  to do those things.  He is on vacation now
> >     but expected back around Thursday.
> >
> >      You are interested in atom-atom distances.  Will the user choose
> >     an atom through the touch interface?  It seems that would require
> >     visual feedback in the Chimera window -- equivalent of the mouse
> >     pointer.  I suppose you could take over the mouse pointer, or you
> >     could create a new "cursor" implemented perhaps as a Chimera 2d label.
> >
> >       Tom
> >
> >
> >
> >
> 
> 
> 
> 
> ------------------------------
> 
> Message: 2
> Date: Tue, 08 Apr 2008 12:49:01 -0700
> From: Tom Goddard <goddard at cgl.ucsf.edu>
> Subject: Re: [chimera-dev] Multi-touch and Chimera
> To: Gergely Nagy <gergelynagy76 at gmail.com>
> Cc: chimera-dev at cgl.ucsf.edu
> Message-ID: <47FBCC2D.2010402 at cgl.ucsf.edu>
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
> 
> Greg suggest a direct call from C/C++ to queue an event.
> 
>     Tom
> 
> Greg Couch wrote:
> > Tom,
> >
> > You need to link with tcl (actually tcl stubs) and use the 
> > Tcl_ThreadQueueEvent function.
> >
> >     - Greg
> >
> > On Tue, 8 Apr 2008, Tom Goddard wrote:
> >
> >> From: Tom Goddard <goddard at cgl.ucsf.edu>
> >> Sender: chimera-dev-bounces at cgl.ucsf.edu
> >> To: Gergely Nagy <gergelynagy76 at gmail.com>
> >> Cc: chimera-dev at cgl.ucsf.edu
> >> Date: Tue, 08 Apr 2008 12:39:58 -0700
> >> Subject: Re: [chimera-dev] Multi-touch and Chimera
> >> Received-SPF: pass (cgl.ucsf.edu: 169.230.27.3 is authenticated by a 
> >> trusted
> >>     mechanism)
> >> Received-SPF: pass (cgl.ucsf.edu: 169.230.27.3 is authenticated by a 
> >> trusted
> >>     mechanism)
> >>
> >> Hi Greg,
> >>
> >>  Chimera is written in Python and C++.  The C++ is used for OpenGL
> >> rendering and for optimizing calculations.  The event loop and user
> >> interface is all in Python.  The touch events and the actions they
> >> trigger should definitely be in Python.  It looks very reasonable to use
> >> Boost Python to wrap the C++ touchlib library or parts of it to make it
> >> accessible to Python.
> >>
> >>    http://wiki.python.org/moin/boost.python/GettingStarted
> >>
> >>    http://www.boost.org/doc/libs/1_35_0/libs/python/doc/index.html
> >>
> >> We use an in-house wrapping program (WrapPy).  Wrapping C/C++ for Python
> >> is often done with package called SWIG.
> >>
> >>  We use the Tcl/Tk event loop using the Python/Tk interface module
> >> called Tkinter.  You can put custom Tk event types such as touch events
> >> in the event queue but I haven't figured out a way to do it.  The
> >> trouble is that you typically will get an event from a callback in C/C++
> >> code.  I recently tried passing such an event (for a Space Navigator
> >> 6-dof input device) to a Python routine.  It resulted in crashes because
> >> Tkinter is designed so that only it can call Python code.  It has some
> >> complicated thread locking code that releases a Python lock and my event
> >> handler called into Python without having that Python lock, tried to do
> >> some Tk call and crashed.  Probably the Python lock can be acquired in
> >> the C/C++ callback, but then if that Python code does Tk calls to add an
> >> event there may be additional problems with Tkinter's Tk lock which is
> >> inaccessible.  So some work is needed to figure out how to get the C/C++
> >> callback events into the Tk event loop.  Once that is solved everything
> >> can be done in Python with event handlers processing those Tk events to
> >> cause any desired Chimera actions.
> >>
> >>    Tom
> 
> 
> 
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