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- 23:30, 21 April 2025 Eew947 talk contribs created page Research:amber tips pr (Created page with "= Ren's example for running sander and pmemd = == Executables == Oscar's mod sander in /home/oscar/data2-oscar mod pmemd in /home/oscar/pmemd/src example mdin and run script files in /home/pren/AMOEBA/solvation/compare/ == A Quick Guide == TO run sander: xyzpdb ele.xyz analyze box30 PC > ele.analout /opt/amber/bin/amoeba_parm -name ele -title "water" > ele.amoeba_parm.out /opt/amber/bin/sander -i ele.mdin -c ele.in...")