Dear Elaine,

Very thanks for your time and consideration.

I downloaded the daily build version of chimera.

After using PDB2PQR in command line, status line shows that output.pqr file was generated.

Then, I used APBS in command line, dx file was created. But after coloring, the colors are as black and white. 

I think chimera uses a pqr file other than output.pqr file which PDB2PQR has generated.

After using APBS in command line, pqr, in and dx files were created in following address:

C:\Users\karami\AppData\Local\Temp\tmphrfmlq

How to find output.pqr file to use that as inout for APBS?

Is my manner wrong?

Thanks in advance,

Leila