3v Running Log for JobId '2017.dec06.074'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=104.129.194.134 (Wed Dec 6 23:22:56 2017)
  • downloading pdb file (Wed Dec 6 23:22:56 2017)
  • completed download of PDB id 5DK3 (size: 1751 k, 22132 lines) (Wed Dec 6 23:22:56 2017)
  • converting pdb into xyzr (Wed Dec 6 23:22:56 2017)
  • completed conversion of PDB file: 5DK3-2017.dec06.074.pdb (size: 313k) (Wed Dec 6 23:23:04 2017)
  • converted 10000 atoms of 10000 atoms (Wed Dec 6 23:23:04 2017)
  • found 10000 atoms in pdb (Wed Dec 6 23:23:04 2017)
  • running 3v volume program (Wed Dec 6 23:23:04 2017)
  • smoothing out volume (Wed Dec 6 23:23:07 2017)
  • imaging volume (download mrc) with UCSF Chimera (Wed Dec 6 23:23:07 2017)
  • UCSF Chimera created Jmol compatible file (Wed Dec 6 23:23:21 2017)
  • compressing 5DK3-2017.dec06.074.obj (Wed Dec 6 23:23:21 2017)
  • UCSF Chimera completed in 17.22 sec (Wed Dec 6 23:23:24 2017)
  • analyzing volume (Wed Dec 6 23:23:24 2017)
  • normal CoM (30.3, 3.7, -39.1) Å (Wed Dec 6 23:24:09 2017)
  • reduced center failed (Wed Dec 6 23:24:22 2017)
  • volume analysis completed in 58.26 sec (Wed Dec 6 23:24:22 2017)
  • compressing 5DK3-2017.dec06.074.mrc (Wed Dec 6 23:24:22 2017)
  • FINISHED (Wed Dec 6 23:24:24 2017)

hit reload to refresh this page



Log file display

Show last lines of log file 
Terminal display
		
/var/www/html/output/2017/dec06/074 
Message: completed conversion of PDB file: 5DK3-2017.dec06.074.pdb (size: 313k) 
Message: converted 10000 atoms of 10000 atoms 
Message: found 10000 atoms in pdb 
Message: running 3v volume program 
wrote to mrc file: /var/www/html/3vee/output/2017/dec06/074/5DK3-2017.dec06.074.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 5DK3-2017.dec06.074.obj 
Message: UCSF Chimera completed in 17.22 sec 
OBJFILE /var/www/html/3vee/output/2017/dec06/074/5DK3-2017.dec06.074.obj.gz 
Message: analyzing volume 
Message: normal CoM (30.3, 3.7, -39.1) Å 
Message: reduced center failed 
Message: volume analysis completed in 58.26 sec 
Message: compressing 5DK3-2017.dec06.074.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