3v Running Log for JobId '2017.oct12.436'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=134.76.70.252 (Thu Oct 12 09:33:48 2017)
  • converting pdb into xyzr (Thu Oct 12 09:33:48 2017)
  • completed conversion of PDB file: 2017.oct12.436.pdb (size: 288k) (Thu Oct 12 09:33:52 2017)
  • converted 9220 atoms of 9220 atoms (Thu Oct 12 09:33:52 2017)
  • found 9220 atoms in pdb (Thu Oct 12 09:33:52 2017)
  • running 3v volume program (Thu Oct 12 09:33:52 2017)
  • smoothing out volume (Thu Oct 12 09:33:52 2017)
  • imaging volume (download mrc) with UCSF Chimera (Thu Oct 12 09:33:53 2017)
  • UCSF Chimera created Jmol compatible file (Thu Oct 12 09:34:01 2017)
  • compressing 2017.oct12.436.obj (Thu Oct 12 09:34:01 2017)
  • UCSF Chimera completed in 9.13 sec (Thu Oct 12 09:34:02 2017)
  • analyzing volume (Thu Oct 12 09:34:02 2017)
  • normal CoM (-1.3, -2.4, 2.7) Å (Thu Oct 12 09:34:04 2017)
  • reduced center failed (Thu Oct 12 09:34:05 2017)
  • volume analysis completed in 3.29 sec (Thu Oct 12 09:34:05 2017)
  • compressing 2017.oct12.436.mrc (Thu Oct 12 09:34:05 2017)
  • FINISHED (Thu Oct 12 09:34:05 2017)

hit reload to refresh this page



Log file display

Show last lines of log file 
Terminal display
		
/var/www/html/output/2017/oct12/436 
Message: completed conversion of PDB file: 2017.oct12.436.pdb (size: 288k) 
Message: converted 9220 atoms of 9220 atoms 
Message: found 9220 atoms in pdb 
Message: running 3v volume program 
wrote to mrc file: /var/www/html/3vee/output/2017/oct12/436/2017.oct12.436.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.oct12.436.obj 
Message: UCSF Chimera completed in 9.13 sec 
OBJFILE /var/www/html/3vee/output/2017/oct12/436/2017.oct12.436.obj.gz 
Message: analyzing volume 
Message: normal CoM (-1.3, -2.4, 2.7) Å 
Message: reduced center failed 
Message: volume analysis completed in 3.29 sec 
Message: compressing 2017.oct12.436.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