3v Running Log for JobId '2020.feb11.206'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=93.144.160.137 (Tue Feb 11 09:37:14 2020)
  • downloading pdb file (Tue Feb 11 09:37:14 2020)
  • failed to download pdb id: 4HI0 (Tue Feb 11 09:37:14 2020)
  • trying download pdb id again without bio unit (Tue Feb 11 09:37:17 2020)
  • completed download of PDB id 4HI0 (size: 1780 k, 22507 lines) (Tue Feb 11 09:37:17 2020)
  • converting pdb into xyzr (Tue Feb 11 09:37:17 2020)
  • completed conversion of PDB file: 4HI0-2020.feb11.206.pdb (size: 333k) (Tue Feb 11 09:37:26 2020)
  • converted 10646 atoms of 10646 atoms (Tue Feb 11 09:37:26 2020)
  • found 10646 atoms in pdb (Tue Feb 11 09:37:26 2020)
  • running 3v all channel program (Tue Feb 11 09:37:26 2020)
  • created 2 channel files (Tue Feb 11 09:37:29 2020)
  • Download MRC files: 1 2 (Tue Feb 11 09:37:29 2020)
  • imaging volume (download mrc) with UCSF Chimera (Tue Feb 11 09:37:29 2020)
  • UCSF Chimera created Jmol compatible file (Tue Feb 11 09:37:43 2020)
  • compressing channel-001.obj (Tue Feb 11 09:37:43 2020)
  • UCSF Chimera completed in 13.67 sec (Tue Feb 11 09:37:43 2020)
  • analyzing volume (Tue Feb 11 09:37:43 2020)
  • normal CoM (-52.6, -48.5, -72.9) Å (Tue Feb 11 09:37:43 2020)
  • reduced center failed (Tue Feb 11 09:37:43 2020)
  • volume analysis completed in 51.95 msec (Tue Feb 11 09:37:43 2020)
  • compressing channel-001.pdb (Tue Feb 11 09:37:43 2020)
  • compressing channel-001.mrc (Tue Feb 11 09:37:43 2020)
  • imaging volume (download mrc) with UCSF Chimera (Tue Feb 11 09:37:43 2020)
  • UCSF Chimera created Jmol compatible file (Tue Feb 11 09:37:53 2020)
  • compressing channel-002.obj (Tue Feb 11 09:37:53 2020)
  • UCSF Chimera completed in 9.76 sec (Tue Feb 11 09:37:53 2020)
  • analyzing volume (Tue Feb 11 09:37:53 2020)
  • normal CoM (-50.7, -38.1, -78.1) Å (Tue Feb 11 09:37:53 2020)
  • reduced center failed (Tue Feb 11 09:37:53 2020)
  • volume analysis completed in 71.69 msec (Tue Feb 11 09:37:53 2020)
  • compressing channel-002.pdb (Tue Feb 11 09:37:53 2020)
  • compressing channel-002.mrc (Tue Feb 11 09:37:53 2020)
  • tarring file list (Tue Feb 11 09:37:53 2020)
  • compressing channel-001.pdb (Tue Feb 11 09:37:53 2020)
  • compressing channel-001.mrc (Tue Feb 11 09:37:53 2020)
  • compressing channel-002.pdb (Tue Feb 11 09:37:53 2020)
  • compressing channel-002.mrc (Tue Feb 11 09:37:53 2020)
  • FINISHED (Tue Feb 11 09:37:53 2020)

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Log file display

Show last lines of log file 
Terminal display
		
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 9.76 sec 
OBJFILE /var/www/html/3vee/output/2020/feb11/206/channel-002.obj.gz 
Message: analyzing volume 
Message: normal CoM (-50.7, -38.1, -78.1) Å 
Message: reduced center failed 
Message: volume analysis completed in 71.69 msec 
Message: compressing channel-002.pdb 
Message: compressing channel-002.mrc 
Message: tarring file list 
Message: compressing channel-001.pdb 
Message: compressing channel-001.mrc 
Message: compressing channel-002.pdb 
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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