3v Running Log for JobId '2017.apr20.f87'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=108.176.246.85 (Thu Apr 20 22:32:54 2017)
  • converting pdb into xyzr (Thu Apr 20 22:32:54 2017)
  • completed conversion of PDB file: 2017.apr20.f87.pdb (size: 32k) (Thu Apr 20 22:32:55 2017)
  • converted 1018 atoms of 1018 atoms (Thu Apr 20 22:32:55 2017)
  • found 1018 atoms in pdb (Thu Apr 20 22:32:55 2017)
  • running 3v volume program (Thu Apr 20 22:32:55 2017)
  • smoothing out volume (Thu Apr 20 22:32:55 2017)
  • imaging volume (download mrc) with UCSF Chimera (Thu Apr 20 22:32:55 2017)
  • UCSF Chimera created Jmol compatible file (Thu Apr 20 22:33:05 2017)
  • compressing 2017.apr20.f87.obj (Thu Apr 20 22:33:05 2017)
  • UCSF Chimera completed in 9.73 sec (Thu Apr 20 22:33:05 2017)
  • analyzing volume (Thu Apr 20 22:33:05 2017)
  • normal CoM (3.6, -2.2, -5.4) Å (Thu Apr 20 22:33:08 2017)
  • reduced center failed (Thu Apr 20 22:33:08 2017)
  • volume analysis completed in 3.45 sec (Thu Apr 20 22:33:08 2017)
  • compressing 2017.apr20.f87.mrc (Thu Apr 20 22:33:08 2017)
  • FINISHED (Thu Apr 20 22:33:09 2017)

hit reload to refresh this page



Log file display

Show last lines of log file 
Terminal display
		
/var/www/html/output/2017/apr20/f87 
Message: completed conversion of PDB file: 2017.apr20.f87.pdb (size: 32k) 
Message: converted 1018 atoms of 1018 atoms 
Message: found 1018 atoms in pdb 
Message: running 3v volume program 
wrote to mrc file: /var/www/html/3vee/output/2017/apr20/f87/2017.apr20.f87.mrc 
Message: smoothing out volume 
Message: imaging volume UCSF Chimera 
/var/www/html/py/appionlib/apChimSnapshot.py 
Message: UCSF Chimera created Jmol compatible file 
Message: compressing 2017.apr20.f87.obj 
Message: UCSF Chimera completed in 9.73 sec 
OBJFILE /var/www/html/3vee/output/2017/apr20/f87/2017.apr20.f87.obj.gz 
Message: analyzing volume 
Message: normal CoM (3.6, -2.2, -5.4) Å 
Message: reduced center failed 
Message: volume analysis completed in 3.45 sec 
Message: compressing 2017.apr20.f87.mrc 
Message: FINISHED 
		


Citation:
'3V: cavity, channel and cleft volume calculator and extractor' (free text)
Nucleic Acids Res. 2010 July 1; 38(Web Server issue): W555–W562
by Neil R. Voss and Mark Gerstein
Download source code
Help
Site news and updates
If you find this useful or want more functionality please contact Neil <vossman77 [at] yahoo.com>
back to main page