ImportError: No module named Chimera
Hi, I’m running a per-frame script to display the time in a MD movie. I used to run it without problems until I downloaded the new Mac OS X 64-bit 1.11 version. (I erased the old app, also tried to re-download the old version with no success). More specifically, I load the MD movie, and in the command line I write: 2dlabels create timer text "0 ns" color white ypos .9 xpos .9 size 50 then I open a per-frame script with the following commands: from Chimera import runCommand runCommand("2dlabels change timer text '%.1f ns'" % (mdInfo['frame']*0.02)) and get the error: Problem in per-frame script: ImportError: No module named Chimera I’ve googled it and found this reply: [Chimera-users] How to install chimera as a python module http://www.cgl.ucsf.edu/pipermail/chimera-users/2014-July/010120.html I’ve tried setting the $CHIMERA_PATH environment variable to /Applications/Chimera.app/Contents/Resources/share but I still run into the same problem. Now, I don’t want to run the script directly from the command line, as it’s a per-frame script I have to run after I load the MD movie and create the 2dlabel object. Anything obvious I’m missing here? Cheers Juan
Hi, Juan. Try using the all lower case module name: "chimera". According to Python PEP 235 (https://www.python.org/dev/peps/pep-0235/), imports are case sensitive, even on platforms whose file systems are case insensitive. Conrad On 5/4/2016 4:04 AM, Eiros Zamora, Juan wrote:
Hi,
I’m running a per-frame script to display the time in a MD movie. I used to run it without problems until I downloaded the new Mac OS X 64-bit 1.11 version. (I erased the old app, also tried to re-download the old version with no success).
More specifically, I load the MD movie, and in the command line I write: 2dlabels create timer text "0 ns" color white ypos .9 xpos .9 size 50 then I open a per-frame script with the following commands:
from Chimera import runCommand runCommand("2dlabels change timer text '%.1f ns'" % (mdInfo['frame']*0.02)) and get the error: Problem in per-frame script: ImportError: No module named Chimera I’ve googled it and found this reply:
[Chimera-users] How to install chimera as a python module
** http://www.cgl.ucsf.edu/pipermail/chimera-users/2014-July/010120.html
I’ve tried setting the $CHIMERA_PATH environment variable to /Applications/Chimera.app/Contents/Resources/share but I still run into the same problem.
Now, I don’t want to run the script directly from the command line, as it’s a per-frame script I have to run after I load the MD movie and create the 2dlabel object.
Anything obvious I’m missing here?
Cheers Juan
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In agreement with Conrad, just a note that there is a similar “MD Movie” per-frame scripting example in the trajectory tutorial, part 1: http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/ensembles2.html> The main example is a per-frame script in Chimera commands, but it also links to a python example: <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/hbcount.py> You shouldn’t have to do anything other than run Chimera (no other installation stuff). Elaine On May 4, 2016, at 9:47 AM, Conrad Huang <conrad@cgl.ucsf.edu> wrote:
Hi, Juan.
Try using the all lower case module name: "chimera".
According to Python PEP 235 (https://www.python.org/dev/peps/pep-0235/), imports are case sensitive, even on platforms whose file systems are case insensitive.
Conrad
On 5/4/2016 4:04 AM, Eiros Zamora, Juan wrote:
Hi,
I’m running a per-frame script to display the time in a MD movie. I used to run it without problems until I downloaded the new Mac OS X 64-bit 1.11 version. (I erased the old app, also tried to re-download the old version with no success).
More specifically, I load the MD movie, and in the command line I write: 2dlabels create timer text "0 ns" color white ypos .9 xpos .9 size 50 then I open a per-frame script with the following commands:
from Chimera import runCommand runCommand("2dlabels change timer text '%.1f ns'" % (mdInfo['frame']*0.02)) and get the error: Problem in per-frame script: ImportError: No module named Chimera I’ve googled it and found this reply:
[Chimera-users] How to install chimera as a python module
** http://www.cgl.ucsf.edu/pipermail/chimera-users/2014-July/010120.html
I’ve tried setting the $CHIMERA_PATH environment variable to /Applications/Chimera.app/Contents/Resources/share but I still run into the same problem.
Now, I don’t want to run the script directly from the command line, as it’s a per-frame script I have to run after I load the MD movie and create the 2dlabel object.
Anything obvious I’m missing here?
Cheers Juan
participants (3)
-
Conrad Huang -
Eiros Zamora, Juan -
Elaine Meng