3v Running Log for JobId '2020.sep15.5ea'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=193.54.246.71 (Tue Sep 15 10:28:27 2020)
  • converting pdb into xyzr (Tue Sep 15 10:28:27 2020)
  • completed conversion of PDB file: 2020.sep15.5ea.pdb (size: 138k) (Tue Sep 15 10:28:30 2020)
  • converted 4422 atoms of 4422 atoms (Tue Sep 15 10:28:30 2020)
  • found 4422 atoms in pdb (Tue Sep 15 10:28:30 2020)
  • running 3v all channel program (Tue Sep 15 10:28:30 2020)
  • created 3 channel files (Tue Sep 15 10:28:31 2020)
  • Download MRC files: 1 2 3 (Tue Sep 15 10:28:31 2020)
  • imaging volume (download mrc) with UCSF Chimera (Tue Sep 15 10:28:31 2020)
  • UCSF Chimera created Jmol compatible file (Tue Sep 15 10:28:35 2020)
  • compressing channel-001.obj (Tue Sep 15 10:28:35 2020)
  • UCSF Chimera completed in 4.54 sec (Tue Sep 15 10:28:35 2020)
  • analyzing volume (Tue Sep 15 10:28:35 2020)
  • normal CoM (-32.8, -37.9, -47.9) Å (Tue Sep 15 10:28:35 2020)
  • reduced center failed (Tue Sep 15 10:28:35 2020)
  • volume analysis completed in 16.19 msec (Tue Sep 15 10:28:35 2020)
  • compressing channel-001.mrc (Tue Sep 15 10:28:35 2020)
  • imaging volume (download mrc) with UCSF Chimera (Tue Sep 15 10:28:36 2020)
  • UCSF Chimera created Jmol compatible file (Tue Sep 15 10:28:40 2020)
  • compressing channel-002.obj (Tue Sep 15 10:28:40 2020)
  • UCSF Chimera completed in 4.45 sec (Tue Sep 15 10:28:40 2020)
  • analyzing volume (Tue Sep 15 10:28:40 2020)
  • normal CoM (-38.6, -36.3, -50.4) Å (Tue Sep 15 10:28:40 2020)
  • reduced center failed (Tue Sep 15 10:28:40 2020)
  • volume analysis completed in 6.66 msec (Tue Sep 15 10:28:40 2020)
  • compressing channel-002.mrc (Tue Sep 15 10:28:40 2020)
  • imaging volume (download mrc) with UCSF Chimera (Tue Sep 15 10:28:40 2020)
  • UCSF Chimera created Jmol compatible file (Tue Sep 15 10:28:44 2020)
  • compressing channel-003.obj (Tue Sep 15 10:28:44 2020)
  • UCSF Chimera completed in 4.02 sec (Tue Sep 15 10:28:44 2020)
  • analyzing volume (Tue Sep 15 10:28:44 2020)
  • normal CoM (-34.6, -36.6, -50.2) Å (Tue Sep 15 10:28:44 2020)
  • reduced center failed (Tue Sep 15 10:28:44 2020)
  • volume analysis completed in 12.49 msec (Tue Sep 15 10:28:44 2020)
  • compressing channel-003.mrc (Tue Sep 15 10:28:44 2020)
  • tarring file list (Tue Sep 15 10:28:44 2020)
  • compressing channel-001.mrc (Tue Sep 15 10:28:44 2020)
  • compressing channel-002.mrc (Tue Sep 15 10:28:44 2020)
  • compressing channel-003.mrc (Tue Sep 15 10:28:44 2020)
  • FINISHED (Tue Sep 15 10:28:44 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 6.66 msec 
Message: compressing channel-002.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-003.obj 
Message: UCSF Chimera completed in 4.02 sec 
OBJFILE /var/www/html/3vee/output/2020/sep15/5ea/channel-003.obj.gz 
Message: analyzing volume 
Message: normal CoM (-34.6, -36.6, -50.2) Å 
Message: reduced center failed 
Message: volume analysis completed in 12.49 msec 
Message: compressing channel-003.mrc 
Message: tarring file list 
Message: compressing channel-001.mrc 
Message: compressing channel-002.mrc 
Message: compressing channel-003.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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