3v Running Log for JobId '2019.feb11.8f2'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=77.80.52.226 (Mon Feb 11 04:25:18 2019)
  • converting pdb into xyzr (Mon Feb 11 04:25:18 2019)
  • completed conversion of PDB file: 2019.feb11.8f2.pdb (size: 91k) (Mon Feb 11 04:25:21 2019)
  • converted 2898 atoms of 2898 atoms (Mon Feb 11 04:25:21 2019)
  • found 2898 atoms in pdb (Mon Feb 11 04:25:21 2019)
  • running 3v volume program (Mon Feb 11 04:25:21 2019)
  • waiting for system load (2.19) to calm down, total wait time: 1.79 sec (Mon Feb 11 04:31:21 2019)
  • running now (Mon Feb 11 04:31:23 2019)
  • smoothing out volume (Mon Feb 11 04:31:23 2019)
  • waiting for system load (2.01) to calm down, total wait time: 2.92 sec (Mon Feb 11 04:31:23 2019)
  • running now (Mon Feb 11 04:31:24 2019)
  • imaging volume (download mrc) with UCSF Chimera (Mon Feb 11 04:31:24 2019)
  • UCSF Chimera created Jmol compatible file (Mon Feb 11 04:31:33 2019)
  • compressing 2019.feb11.8f2.obj (Mon Feb 11 04:31:33 2019)
  • UCSF Chimera completed in 12.63 sec (Mon Feb 11 04:31:33 2019)
  • analyzing volume (Mon Feb 11 04:31:33 2019)
  • normal CoM (-26.1, 8.8, 20.5) Å (Mon Feb 11 04:32:09 2019)
  • reduced center failed (Mon Feb 11 04:32:16 2019)
  • volume analysis completed in 42.41 sec (Mon Feb 11 04:32:16 2019)
  • compressing 2019.feb11.8f2.mrc (Mon Feb 11 04:32:16 2019)
  • FINISHED (Mon Feb 11 04:32:16 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/feb11/8f2/2019.feb11.8f2.mrc 
Message: waiting for system load (2.19) to calm down, total wait time: 1.79 sec 
Message: running now 
Message: smoothing out volume 
Message: waiting for system load (2.01) to calm down, total wait time: 2.92 sec 
Message: running now 
Message: imaging volume UCSF Chimera 
/var/www/html/py/appionlib/apChimSnapshot.py 
Message: UCSF Chimera created Jmol compatible file 
Message: compressing 2019.feb11.8f2.obj 
Message: UCSF Chimera completed in 12.63 sec 
OBJFILE /var/www/html/3vee/output/2019/feb11/8f2/2019.feb11.8f2.obj.gz 
Message: analyzing volume 
Message: normal CoM (-26.1, 8.8, 20.5) Å 
Message: reduced center failed 
Message: volume analysis completed in 42.41 sec 
Message: compressing 2019.feb11.8f2.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
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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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