3v Running Log for JobId '2020.mar24.322'

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  • host ip address=194.85.9.14 (Tue Mar 24 09:03:44 2020)
  • converting pdb into xyzr (Tue Mar 24 09:03:44 2020)
  • completed conversion of PDB file: 2020.mar24.322.pdb (size: 41k) (Tue Mar 24 09:03:44 2020)
  • converted 1301 atoms of 1301 atoms (Tue Mar 24 09:03:44 2020)
  • found 1301 atoms in pdb (Tue Mar 24 09:03:44 2020)
  • running 3v solvent program (Tue Mar 24 09:03:44 2020)
  • imaging volume (download mrc) with UCSF Chimera (Tue Mar 24 09:03:44 2020)
  • UCSF Chimera created Jmol compatible file (Tue Mar 24 09:03:47 2020)
  • compressing 2020.mar24.322.obj (Tue Mar 24 09:03:47 2020)
  • UCSF Chimera completed in 2.43 sec (Tue Mar 24 09:03:47 2020)
  • analyzing volume (Tue Mar 24 09:03:47 2020)
  • normal CoM (-12.0, 4.0, 5.0) Å (Tue Mar 24 09:03:47 2020)
  • volume analysis completed in 0.63 sec (Tue Mar 24 09:03:47 2020)
  • compressing 2020.mar24.322.mrc (Tue Mar 24 09:03:47 2020)
  • FINISHED (Tue Mar 24 09:03:48 2020)

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Log file display

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Terminal display
		
Message: host ip address=194.85.9.14 
Message: converting pdb into xyzr 
/srv/output/2020/mar24/322 
Message: completed conversion of PDB file: 2020.mar24.322.pdb (size: 41k) 
Message: converted 1301 atoms of 1301 atoms 
Message: found 1301 atoms in pdb 
Message: running 3v solvent program 
wrote to file: /var/www/html/3vee/output/2020/mar24/322/2020.mar24.322.mrc 
Message: imaging volume UCSF Chimera 
/var/www/html/py/appionlib/apChimSnapshot.py 
Message: UCSF Chimera created Jmol compatible file 
Message: compressing 2020.mar24.322.obj 
Message: UCSF Chimera completed in 2.43 sec 
OBJFILE /var/www/html/3vee/output/2020/mar24/322/2020.mar24.322.obj.gz 
Message: analyzing volume 
Message: normal CoM (-12.0, 4.0, 5.0) Å 
Message: volume analysis completed in 0.63 sec 
Message: compressing 2020.mar24.322.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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