3v Running Log for JobId '2023.may25.95b'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=88.180.11.4 (Thu May 25 14:55:34 2023)
  • converting pdb into xyzr (Thu May 25 14:55:34 2023)
  • completed conversion of PDB file: 2023.may25.95b.pdb (size: 965k) (Thu May 25 14:55:45 2023)
  • converted 30874 atoms of 30874 atoms (Thu May 25 14:55:45 2023)
  • found 30874 atoms in pdb (Thu May 25 14:55:45 2023)
  • running 3v all channel program (Thu May 25 14:55:45 2023)
  • created 2 channel files (Thu May 25 14:55:53 2023)
  • Download MRC files: 1 2 (Thu May 25 14:55:53 2023)
  • imaging volume (download mrc) with UCSF Chimera (Thu May 25 14:55:53 2023)
  • UCSF Chimera created Jmol compatible file (Thu May 25 14:56:10 2023)
  • compressing channel-001.obj (Thu May 25 14:56:10 2023)
  • UCSF Chimera completed in 18.38 sec (Thu May 25 14:56:12 2023)
  • analyzing volume (Thu May 25 14:56:12 2023)
  • normal CoM (-29.0, -33.7, -30.6) Å (Thu May 25 14:56:14 2023)
  • reduced center failed (Thu May 25 14:56:14 2023)
  • volume analysis completed in 2.34 sec (Thu May 25 14:56:14 2023)
  • compressing channel-001.mrc (Thu May 25 14:56:14 2023)
  • imaging volume (download mrc) with UCSF Chimera (Thu May 25 14:56:14 2023)
  • UCSF Chimera created Jmol compatible file (Thu May 25 14:56:28 2023)
  • compressing channel-002.obj (Thu May 25 14:56:28 2023)
  • UCSF Chimera completed in 13.5 sec (Thu May 25 14:56:28 2023)
  • analyzing volume (Thu May 25 14:56:28 2023)
  • normal CoM (-64.9, -68.7, -54.8) Å (Thu May 25 14:56:28 2023)
  • reduced center failed (Thu May 25 14:56:28 2023)
  • volume analysis completed in 50.85 msec (Thu May 25 14:56:28 2023)
  • compressing channel-002.mrc (Thu May 25 14:56:28 2023)
  • tarring file list (Thu May 25 14:56:28 2023)
  • compressing channel-001.mrc (Thu May 25 14:56:28 2023)
  • compressing channel-002.mrc (Thu May 25 14:56:28 2023)
  • FINISHED (Thu May 25 14:56:28 2023)

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Log file display

Show last lines of log file  
Terminal display
		
Message: reduced center failed 
Message: volume analysis completed in 2.34 sec 
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 13.5 sec 
OBJFILE /var/www/html/3vee/output/2023/may25/95b/channel-002.obj.gz 
Message: analyzing volume 
Message: normal CoM (-64.9, -68.7, -54.8) Å 
Message: reduced center failed 
Message: volume analysis completed in 50.85 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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