June 2015 - Chimera-dev - RBVI Mailing Lists

Packaging an extension... Error
by MARYAM ARAB 15 Jun '15

15 Jun '15

Dear Developers, Hi, I have a C++ program and I want to package it under the tools menu. I made a dll from my program. My dll gets two input ( pdb name and volum density level ,) and generate the output. when I save the python codes to execute my dll in the chimera IDLE, every thing works well and my program starts working and generates the output. here is the code that I ran in the IDLE: import ctypes dll = ctypes.CDLL('tracer_v2.dll') dll.calc.argtypes = [ctypes.c_char_p, ctypes.c_double] dll.calc.restype = ctypes.c_int print(dll.calc('1733_H',3)) The problem that I faced is that when I add an extension button to the chimera and wants to call my function (calc('1733_H', 3) ) from there, I get an error: WindowsError Exception in Tk callback Function: <function command at 0x0D1A89B0> (type: <type 'function'>) Args: () Traceback (innermost last): File "C:\Program Files (x86)\Chimera 1.10.1\bin\lib\site-packages\Pmw\Pmw_1_3_3\lib\PmwBase.py", line 1747, in __call__ return apply(self.func, args) File "C:\Program Files (x86)\Chimera 1.10.1\share\chimera\baseDialog.py", line 449, in command getattr(s, buttonFuncName(txt))() File "Z:\Tracer_Chimera\GUI\TracerUI\gui.py", line 43, in Apply TracerUI.mainchain() File "Z:\Tracer_Chimera\GUI\TracerUI\__init__.py", line 9, in mainchain dll = ctypes.CDLL('tracer_v2.dll') File "C:\Program Files (x86)\Chimera 1.10.1\bin\lib\ctypes\__init__.py", line 365, in __init__ self._handle = _dlopen(self._name, mode) WindowsError: [Error 126] The specified module could not be found Would you please help me know how I can fix it? Thanks, Maryam Arab Research Assistant Old Dominion University

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savepos
by Dougherty, Matthew T 12 Jun '15

12 Jun '15

This relates to a previous email exchange. I would like to add a description parameter to the import of midas positions. The reason is that I would like to keep the position names brief when I am doing scripting, but would like to put detailed information in the description, for example a flag indicating that the research group has picked particular positions to be used in an animation after proofing through a pool of 50 saved positions. I would also like to use the field to indicate other things such as which animation is is to be used in, number of seconds I should hold the position before moving on, date it was created, etc. I think there are two ways to add a description field into position 1) something in the chimera build that I could access with python, 2) something I would add through my python code. If I did this I would have concern that the description parameter gets included in the session save, or could create incompatibilities in the session files down the road on later chimera builds. Which method would you recommend? In a related s/w dev comment, I am now connecting an ipad via wifi, to my laptop. This is allows me to pass the ipad around as a control surface in a collaborative conference room/dome environment. As the conductor of the collaborative viz, I would have buttons on the laptop that would alter the gui on the ipadbased on the needs of the moment (e.g., color, stereo3D, threshold). This part of overall HID toolbox of multiple gamespads, contour shuttle dialbox, 3dconnection, and master control button boxes, where I am remapping variables (e.g., translation/rotation) to an HID such that a user can make a preference as to which HID is more intuitive. Matthew Dougherty National Center for Macromolecular Imaging Baylor College of Medicine ===========================================================================

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Opening a *.py file on Windows, Chimera has issues with spaces in name
by Bernard Lieberman 08 Jun '15

08 Jun '15

Hello, I'm writing an application that calls a relevant python file and opens it in Chimera. I've gotten the program working just fine on the majority of systems but one of my clients attempted to use the application and noticed it's having a breaking point or issue (on his particular Windows Vista system) when the application tries to open the python file. Windows itself recognized the exact path and location and can open the file on other computers just fine. Any assistance or advice on what I'm missing (if there's a chimera-specific setting) or if this is a known issue with particular OS'es etc., please let me know. Best regards, Bernard

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