3v Running Log for JobId '2018.apr16.0f8'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=147.122.46.35 (Mon Apr 16 09:00:27 2018)
  • converting pdb into xyzr (Mon Apr 16 09:00:27 2018)
  • completed conversion of PDB file: 2018.apr16.0f8.pdb (size: 105k) (Mon Apr 16 09:00:28 2018)
  • converted 3351 atoms of 3351 atoms (Mon Apr 16 09:00:28 2018)
  • found 3351 atoms in pdb (Mon Apr 16 09:00:28 2018)
  • running 3v solvent program (Mon Apr 16 09:00:28 2018)
  • imaging volume (download mrc) with UCSF Chimera (Mon Apr 16 09:00:38 2018)
  • UCSF Chimera created Jmol compatible file (Mon Apr 16 09:00:44 2018)
  • compressing 2018.apr16.0f8.obj (Mon Apr 16 09:00:44 2018)
  • UCSF Chimera completed in 6.12 sec (Mon Apr 16 09:00:44 2018)
  • analyzing volume (Mon Apr 16 09:00:44 2018)
  • normal CoM (-16.8, -3.9, -11.2) Å (Mon Apr 16 09:00:58 2018)
  • reduced center failed (Mon Apr 16 09:01:00 2018)
  • volume analysis completed in 15.99 sec (Mon Apr 16 09:01:00 2018)
  • compressing 2018.apr16.0f8.mrc (Mon Apr 16 09:01:00 2018)
  • waiting for system load (2.14) to calm down, total wait time: 1.58 sec (Mon Apr 16 09:01:00 2018)
  • running now (Mon Apr 16 09:01:02 2018)
  • waiting for system load (2.45) to calm down, total wait time: 4.73 sec (Mon Apr 16 09:01:02 2018)
  • running now (Mon Apr 16 09:01:05 2018)
  • FINISHED (Mon Apr 16 09:01:05 2018)

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Log file display

Show last lines of log file 
Terminal display
		
Message: found 3351 atoms in pdb 
Message: running 3v solvent program 
wrote to file: /var/www/html/3vee/output/2018/apr16/0f8/2018.apr16.0f8.mrc 
Message: imaging volume UCSF Chimera 
/var/www/html/py/appionlib/apChimSnapshot.py 
Message: UCSF Chimera created Jmol compatible file 
Message: compressing 2018.apr16.0f8.obj 
Message: UCSF Chimera completed in 6.12 sec 
OBJFILE /var/www/html/3vee/output/2018/apr16/0f8/2018.apr16.0f8.obj.gz 
Message: analyzing volume 
Message: normal CoM (-16.8, -3.9, -11.2) Å 
Message: reduced center failed 
Message: volume analysis completed in 15.99 sec 
Message: compressing 2018.apr16.0f8.mrc 
Message: waiting for system load (2.14) to calm down, total wait time: 1.58 sec 
Message: running now 
Message: waiting for system load (2.45) to calm down, total wait time: 4.73 sec 
Message: running now 
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
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If you find this useful or want more functionality please contact Neil <vossman77 [at] gmail [dot] com>
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