AMBER: error due to exceeding left-hand side digital numbers in restart output

From: Cenk Andac <>
Date: Mon, 18 Jun 2007 01:09:36 -0700 (PDT)

Dear amber community,

I have been running a 300 ns MD for an RNA hairpin solvated by TIP3
waters. somewhere around 50 ns of MD , I seem to get some errors with
restart files so that the next sander routine does not start. After
going through the coordinates in the previous restart file, I have
noticed that some coordinates were filled with lots of stars, like
****.******* , instead of numbers. I was able to get the coordinates from the
last snapshot of the trajectory though. The missing coordinates are all
like -1XXX.XXXXXXX and they don't seem to fit in the restart file. Is
there any solution to this?

Best regards,


   Cenk Andac, M.S., Ph.D. Student
 School of Pharmacy at
 Gazi University-Ankara Turkiye
  Address: Bandirma Sok. No:6
 Etiler, Ankara, 06330 Turkey
 Cell: +90-(536)-4813012

Need a vacation? Get great deals to amazing places on Yahoo! Travel.
The AMBER Mail Reflector
To post, send mail to
To unsubscribe, send "unsubscribe amber" to
Received on Wed Jun 20 2007 - 06:07:15 PDT
Custom Search