3v Running Log for JobId '2019.may15.853'

Program is still running, progress is shown below

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  • host ip address=142.66.176.136 (Wed May 15 12:38:16 2019)
  • converting pdb into xyzr (Wed May 15 12:38:16 2019)
  • completed conversion of PDB file: 2019.may15.853.pdb (size: 155k) (Wed May 15 12:38:17 2019)
  • converted 4964 atoms of 4964 atoms (Wed May 15 12:38:17 2019)
  • found 4964 atoms in pdb (Wed May 15 12:38:17 2019)
  • running 3v volume program (Wed May 15 12:38:17 2019)
  • smoothing out volume (Wed May 15 12:38:25 2019)
  • imaging volume (download mrc) with UCSF Chimera (Wed May 15 12:38:26 2019)
  • UCSF Chimera created Jmol compatible file (Wed May 15 12:38:34 2019)
  • compressing 2019.may15.853.obj (Wed May 15 12:38:34 2019)
  • UCSF Chimera completed in 8.96 sec (Wed May 15 12:38:34 2019)
  • analyzing volume (Wed May 15 12:38:34 2019)
  • normal CoM (18.3, -0.6, -32.2) Å (Wed May 15 12:38:50 2019)
  • reduced center failed (Wed May 15 12:38:52 2019)
  • volume analysis completed in 17.88 sec (Wed May 15 12:38:52 2019)
  • compressing 2019.may15.853.mrc (Wed May 15 12:38:52 2019)
  • waiting for system load (2.32) to calm down, total wait time: 2.4 sec (Wed May 15 12:38:52 2019)
  • running now (Wed May 15 12:38:55 2019)
  • waiting for system load (2.14) to calm down, total wait time: 3.98 sec (Wed May 15 12:38:55 2019)
  • running now (Wed May 15 12:38:56 2019)
  • FINISHED (Wed May 15 12:38:56 2019)

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Log file display

Show last lines of log file 
Terminal display
		
Message: running 3v volume program 
wrote to mrc file: /var/www/html/3vee/output/2019/may15/853/2019.may15.853.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 2019.may15.853.obj 
Message: UCSF Chimera completed in 8.96 sec 
OBJFILE /var/www/html/3vee/output/2019/may15/853/2019.may15.853.obj.gz 
Message: analyzing volume 
Message: normal CoM (18.3, -0.6, -32.2) Å 
Message: reduced center failed 
Message: volume analysis completed in 17.88 sec 
Message: compressing 2019.may15.853.mrc 
Message: waiting for system load (2.32) to calm down, total wait time: 2.4 sec 
Message: running now 
Message: waiting for system load (2.14) to calm down, total wait time: 3.98 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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