3v Running Log for JobId '2017.dec06.162'

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  • host ip address=128.114.150.252 (Wed Dec 6 17:58:47 2017)
  • converting pdb into xyzr (Wed Dec 6 17:58:47 2017)
  • completed conversion of PDB file: 2017.dec06.162.pdb (size: 5527k) (Wed Dec 6 18:00:16 2017)
  • converted 176860 atoms of 176860 atoms (Wed Dec 6 18:00:16 2017)
  • found 176860 atoms in pdb (Wed Dec 6 18:00:16 2017)
  • running 3v all channel program (Wed Dec 6 18:00:16 2017)
  • created 2 channel files (Wed Dec 6 18:00:25 2017)
  • Download MRC files: 1 2 (Wed Dec 6 18:00:25 2017)
  • imaging volume (download mrc) with UCSF Chimera (Wed Dec 6 18:00:25 2017)
  • UCSF Chimera created Jmol compatible file (Wed Dec 6 18:01:29 2017)
  • compressing channel-001.obj (Wed Dec 6 18:01:29 2017)
  • UCSF Chimera completed in 64.31 sec (Wed Dec 6 18:01:29 2017)
  • analyzing volume (Wed Dec 6 18:01:29 2017)
  • normal CoM (-75.1, -62.0, -40.4) Å (Wed Dec 6 18:01:30 2017)
  • reduced center failed (Wed Dec 6 18:01:30 2017)
  • volume analysis completed in 0.64 sec (Wed Dec 6 18:01:30 2017)
  • compressing channel-001.mrc (Wed Dec 6 18:01:30 2017)
  • imaging volume (download mrc) with UCSF Chimera (Wed Dec 6 18:01:30 2017)
  • UCSF Chimera created Jmol compatible file (Wed Dec 6 18:02:32 2017)
  • compressing channel-002.obj (Wed Dec 6 18:02:32 2017)
  • UCSF Chimera completed in 62.56 sec (Wed Dec 6 18:02:33 2017)
  • analyzing volume (Wed Dec 6 18:02:33 2017)
  • normal CoM (-94.0, -92.8, -70.1) Å (Wed Dec 6 18:02:33 2017)
  • reduced center failed (Wed Dec 6 18:02:33 2017)
  • volume analysis completed in 113.34 msec (Wed Dec 6 18:02:33 2017)
  • compressing channel-002.mrc (Wed Dec 6 18:02:33 2017)
  • tarring file list (Wed Dec 6 18:02:33 2017)
  • compressing channel-001.mrc (Wed Dec 6 18:02:33 2017)
  • compressing channel-002.mrc (Wed Dec 6 18:02:33 2017)
  • FINISHED (Wed Dec 6 18:02:33 2017)

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Log file display

Show last lines of log file 
Terminal display
		
Message: reduced center failed 
Message: volume analysis completed in 0.64 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 62.56 sec 
OBJFILE /var/www/html/3vee/output/2017/dec06/162/channel-002.obj.gz 
Message: analyzing volume 
Message: normal CoM (-94.0, -92.8, -70.1) Å 
Message: reduced center failed 
Message: volume analysis completed in 113.34 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] yahoo.com>
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