Hi Martin, Which version of PyMOL are you using? How did you install PyMOL? These details matter because there are several paths for installing PyMOL on Linux. Some paths use the system python and some do not. The incentive PyMOL has Anaconda Python bundled inside.
You could install Ancaonda3 and then create a conda env called pymolconda. Then you can activate this env, install pymol with conda, and then call pymol as module with the Anaconda Python. Best regards, Best regards, Blaine Blaine Mooers, Ph.D. Associate Professor Department of Biochemistry and Molecular Biology, College of Medicine Director of the Laboratory of Biomolecular Structure and Function Academic Director, Biomolecular Structure Core, COBRE in Structural Biology Full Member, Cancer Biology Program, Stephenson Cancer Center University of Oklahoma Health Sciences Center Mailing Address: 975 NE 10th Street, BRC 466 Oklahoma City, OK 73104-5419 Office: 405-271-8300 Lab: 405-271-8312 Websites: Faculty page: https://basicsciences.ouhsc.edu/bmb/Faculty/bio_details/mooers-blaine-hm-phd BSC-OKC (LBSF): https://research.ouhsc.edu/Core-Facilities/Laboratory-of-Biomolecular-Structure-and-Function COBRE in Structural Biology: https://www.ou.edu/structuralbiology ________________________________ From: Martin Urban <martin.ur...@studmail.w-hs.de> Sent: Saturday, June 11, 2022 2:34 AM To: pymol-users@lists.sourceforge.net <pymol-users@lists.sourceforge.net> Subject: [EXTERNAL] [PyMOL] PyMOL scripting issues Hello, I have a problem with PyMOL. I am writing a more complex automation script, and I want to import pymol's cmd module. The problem is that the python interpreter on my linux system doesn't recognize pymol and it throws an ModuleNotFound Error. I have a Ubuntu system and I installed pymol with the apt package manager. Does anyone know how the systems python3 interpreter can find the cmd module from PyMOL? Greetings from Germany, Martin -- Martin Urban Westfälische Hochschule / Westphalian University of Applied Sciences Fachbereich Ingenieur- und Naturwissenschaften (FB 8) / Department of Engineering and Natural Sciences August-Schmidt-Ring 10 D-45665 Recklinghausen, Germany _______________________________________________ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
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