Hi Tom, I am trying to plot a graph of average density as a function of radius in Chimera v1.7. I tried the code that you wrote for Padma in an earlier post. However, Chimera spits up this error "Accelerators file C:\Program Files\Chimera 1.7\share\Accelerators\radial_density.py has no register_accelerators() function." when I try to load the radial_density.py in the keyboard shortcuts menu. Could you tell me how this bug can be fixed? Awaiting your assistance, Warm regards, Pranav Shah Postgraduate student (Infection and Immunobiology), College of Medical, Veterinary and Life Sciences, Institute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow, Scotland, UK.
Hi Pranav, The Chimera radial map density code I gave to Padma (in 2007) was a simple Chimera extension in a directory called RadialDensity. You either put the RadialDensity directory in the chimera/share directory (on Mac Chimera.app/Contents/Resources/share) or you can put it somewhere else for example /Users/me/chimera-stuff/RadialDensity then add the parent directory (e.g. chimera-stuff) using Favorites / Preferences, category Tools, Add.... After doing either of these install steps Chimera will have a keyboard shortcut "rd" that prints the density values as a function of radius (in steps equal to the map grid spacing). You can plot those with whatever plotting application you want. To run the shortcut you can use the command "ac rd", or enable keyboard shortcuts (using Tools / General Controls / Keyboard Shortcuts) and just type rd. I've put the RadialDensity extension on the Chimera Python scripts web page. http://plato.cgl.ucsf.edu/trac/chimera/wiki/Scripts I've attached a plot I made with it of a bacteriophage (EMDB 1011). Tom -------- Original Message -------- Subject: [Chimera-users] Radial density plots From: Pranav Shah To: chimera-users@cgl.ucsf.edu Date: 4/13/13 8:04 PM
Hi Tom,
I am trying to plot a graph of average density as a function of radius in Chimera v1.7. I tried the code that you wrote for Padma in an earlier post. However, Chimera spits up this error "Accelerators file C:\Program Files\Chimera 1.7\share\Accelerators\radial_density.py has no register_accelerators() function." when I try to load the radial_density.py in the keyboard shortcuts menu. Could you tell me how this bug can be fixed?
Awaiting your assistance,
Warm regards,
Pranav Shah Postgraduate student (Infection and Immunobiology), College of Medical, Veterinary and Life Sciences, Institute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow, Scotland, UK. _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users
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Tom Goddard