3v Running Log for JobId '2020.feb11.3df'

Program is still running, progress is shown below

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  • host ip address=188.214.10.249 (Tue Feb 11 13:24:41 2020)
  • converting pdb into xyzr (Tue Feb 11 13:24:41 2020)
  • completed conversion of PDB file: 2020.feb11.3df.pdb (size: 94k) (Tue Feb 11 13:24:43 2020)
  • converted 2998 atoms of 2998 atoms (Tue Feb 11 13:24:43 2020)
  • found 2998 atoms in pdb (Tue Feb 11 13:24:43 2020)
  • running 3v all channel program (Tue Feb 11 13:24:43 2020)
  • created 2 channel files (Tue Feb 11 13:24:44 2020)
  • Download MRC files: 1 2 (Tue Feb 11 13:24:44 2020)
  • imaging volume (download mrc) with UCSF Chimera (Tue Feb 11 13:24:44 2020)
  • UCSF Chimera created Jmol compatible file (Tue Feb 11 13:24:49 2020)
  • compressing channel-001.obj (Tue Feb 11 13:24:49 2020)
  • UCSF Chimera completed in 4.78 sec (Tue Feb 11 13:24:49 2020)
  • analyzing volume (Tue Feb 11 13:24:49 2020)
  • normal CoM (-45.5, -30.0, -41.8) Å (Tue Feb 11 13:24:49 2020)
  • reduced center failed (Tue Feb 11 13:24:49 2020)
  • volume analysis completed in 15.03 msec (Tue Feb 11 13:24:49 2020)
  • compressing channel-001.mrc (Tue Feb 11 13:24:49 2020)
  • imaging volume (download mrc) with UCSF Chimera (Tue Feb 11 13:24:49 2020)
  • UCSF Chimera created Jmol compatible file (Tue Feb 11 13:24:54 2020)
  • compressing channel-002.obj (Tue Feb 11 13:24:54 2020)
  • UCSF Chimera completed in 4.85 sec (Tue Feb 11 13:24:54 2020)
  • analyzing volume (Tue Feb 11 13:24:54 2020)
  • normal CoM (-34.0, -28.6, -37.7) Å (Tue Feb 11 13:24:54 2020)
  • reduced center failed (Tue Feb 11 13:24:54 2020)
  • volume analysis completed in 64.8 msec (Tue Feb 11 13:24:54 2020)
  • compressing channel-002.mrc (Tue Feb 11 13:24:54 2020)
  • tarring file list (Tue Feb 11 13:24:54 2020)
  • compressing channel-001.mrc (Tue Feb 11 13:24:54 2020)
  • compressing channel-002.mrc (Tue Feb 11 13:24:54 2020)
  • FINISHED (Tue Feb 11 13:24:54 2020)

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Log file display

Show last lines of log file 
Terminal display
		
Message: reduced center failed 
Message: volume analysis completed in 15.03 msec 
Message: compressing channel-001.mrc 
Message: imaging volume (d ... 
himera/'>UCSF Chimera 
/var/www/html/py/appionlib/apChimSnapshot.py 
Message: UCSF Chimera created Jmol compatible file 
Message: compressing channel-002.obj 
Message: UCSF Chimera completed in 4.85 sec 
OBJFILE /var/www/html/3vee/output/2020/feb11/3df/channel-002.obj.gz 
Message: analyzing volume 
Message: normal CoM (-34.0, -28.6, -37.7) Å 
Message: reduced center failed 
Message: volume analysis completed in 64.8 msec 
Message: compressing channel-002.mrc 
Message: tarring file list 
Message: compressing channel-001.mrc 
Message: compressing channel-002.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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