3v Running Log for JobId '2022.oct07.223'

Program is still running, progress is shown below

Show unfinished results

  • host ip address=192.87.97.242 (Fri Oct 7 10:37:04 2022)
  • waiting for system load (4.17) to calm down, total wait time: 31.96 sec (Fri Oct 7 10:37:05 2022)
  • waiting for system load (4.21) to calm down, total wait time: 65.13 sec (Fri Oct 7 10:37:37 2022)
  • waiting for system load (4.12) to calm down, total wait time: 1 min 36 sec (Fri Oct 7 10:38:10 2022)
  • waiting for system load (4.22) to calm down, total wait time: 2 min 9 sec (Fri Oct 7 10:38:40 2022)
  • waiting for system load (4.32) to calm down, total wait time: 2 min 46 sec (Fri Oct 7 10:39:14 2022)
  • running now (Fri Oct 7 10:39:51 2022)
  • downloading pdb file (Fri Oct 7 10:39:51 2022)
  • waiting for system load (3.61) to calm down, total wait time: 3 min 4 sec (Fri Oct 7 10:39:51 2022)
  • waiting for system load (3.25) to calm down, total wait time: 3 min 15 sec (Fri Oct 7 10:40:09 2022)
  • running now (Fri Oct 7 10:40:20 2022)
  • waiting for system load (2.98) to calm down, total wait time: 3 min 23 sec (Fri Oct 7 10:40:20 2022)
  • waiting for system load (2.90) to calm down, total wait time: 3 min 30 sec (Fri Oct 7 10:40:28 2022)
  • running now (Fri Oct 7 10:40:35 2022)
  • completed download of PDB id 1jj2 (size: 7977 k, 100850 lines) (Fri Oct 7 10:40:35 2022)
  • waiting for system load (2.68) to calm down, total wait time: 3 min 35 sec (Fri Oct 7 10:40:35 2022)
  • waiting for system load (2.79) to calm down, total wait time: 3 min 41 sec (Fri Oct 7 10:40:40 2022)
  • running now (Fri Oct 7 10:40:46 2022)
  • converting pdb into xyzr (Fri Oct 7 10:40:46 2022)
  • waiting for system load (2.88) to calm down, total wait time: 3 min 47 sec (Fri Oct 7 10:40:46 2022)
  • waiting for system load (2.97) to calm down, total wait time: 3 min 55 sec (Fri Oct 7 10:40:53 2022)
  • waiting for system load (3.13) to calm down, total wait time: 4 min 5 sec (Fri Oct 7 10:41:01 2022)
  • running now (Fri Oct 7 10:41:11 2022)
  • completed conversion of PDB file: 1jj2-2022.oct07.223.pdb (size: 2826k) (Fri Oct 7 10:42:11 2022)
  • converted 90418 atoms of 90418 atoms (Fri Oct 7 10:42:11 2022)
  • found 90418 atoms in pdb (Fri Oct 7 10:42:11 2022)
  • waiting for system load (4.39) to calm down, total wait time: 4 min 44 sec (Fri Oct 7 10:42:11 2022)
  • waiting for system load (4.28) to calm down, total wait time: 5 min 19 sec (Fri Oct 7 10:42:50 2022)
  • waiting for system load (4.26) to calm down, total wait time: 5 min 54 sec (Fri Oct 7 10:43:25 2022)
  • waiting for system load (4.14) to calm down, total wait time: 6 min 25 sec (Fri Oct 7 10:44:00 2022)
  • waiting for system load (4.09) to calm down, total wait time: 6 min 55 sec (Fri Oct 7 10:44:31 2022)
  • running now (Fri Oct 7 10:45:01 2022)
  • running 3v exit tunnel program (Fri Oct 7 10:45:01 2022)
  • waiting for system load (4.20) to calm down, total wait time: 7 min 28 sec (Fri Oct 7 10:45:01 2022)
  • waiting for system load (3.86) to calm down, total wait time: 7 min 51 sec (Fri Oct 7 10:45:34 2022)
  • waiting for system load (3.16) to calm down, total wait time: 8 min 1 sec (Fri Oct 7 10:45:57 2022)
  • running now (Fri Oct 7 10:46:07 2022)
  • imaging volume (download mrc) with UCSF Chimera (Fri Oct 7 10:56:56 2022)
  • UCSF Chimera created Jmol compatible file (Fri Oct 7 10:57:30 2022)
  • compressing 1jj2-2022.oct07.223.obj (Fri Oct 7 10:57:30 2022)
  • waiting for system load (4.86) to calm down, total wait time: 8 min 59 sec (Fri Oct 7 10:57:30 2022)
  • waiting for system load (4.27) to calm down, total wait time: 9 min 34 sec (Fri Oct 7 10:58:28 2022)
  • waiting for system load (4.22) to calm down, total wait time: 10 min 7 sec (Fri Oct 7 10:59:03 2022)
  • waiting for system load (4.18) to calm down, total wait time: 10 min 40 sec (Fri Oct 7 10:59:36 2022)
  • waiting for system load (4.11) to calm down, total wait time: 11 min 10 sec (Fri Oct 7 11:00:09 2022)
  • running now (Fri Oct 7 11:00:39 2022)
  • waiting for system load (4.13) to calm down, total wait time: 11 min 41 sec (Fri Oct 7 11:00:39 2022)
  • waiting for system load (4.13) to calm down, total wait time: 12 min 11 sec (Fri Oct 7 11:01:10 2022)
  • waiting for system load (4.16) to calm down, total wait time: 12 min 43 sec (Fri Oct 7 11:01:41 2022)
  • waiting for system load (4.09) to calm down, total wait time: 13 min 13 sec (Fri Oct 7 11:02:12 2022)
  • running now (Fri Oct 7 11:02:42 2022)
  • UCSF Chimera completed in 5 min 47 sec (Fri Oct 7 11:02:42 2022)
  • analyzing volume (Fri Oct 7 11:02:42 2022)
  • normal CoM (-79.2, -105.0, -94.3) Å (Fri Oct 7 11:02:44 2022)
  • reduced center failed (Fri Oct 7 11:02:44 2022)
  • volume analysis completed in 1.28 sec (Fri Oct 7 11:02:44 2022)
  • compressing 1jj2-2022.oct07.223.mrc (Fri Oct 7 11:02:44 2022)
  • waiting for system load (3.21) to calm down, total wait time: 13 min 24 sec (Fri Oct 7 11:02:44 2022)
  • waiting for system load (3.03) to calm down, total wait time: 13 min 32 sec (Fri Oct 7 11:02:55 2022)
  • running now (Fri Oct 7 11:03:03 2022)
  • waiting for system load (2.79) to calm down, total wait time: 13 min 38 sec (Fri Oct 7 11:03:03 2022)
  • waiting for system load (2.64) to calm down, total wait time: 13 min 42 sec (Fri Oct 7 11:03:09 2022)
  • running now (Fri Oct 7 11:03:13 2022)
  • FINISHED (Fri Oct 7 11:03:14 2022)

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Log file display

Show last lines of log file  
Terminal display
		
Message: UCSF Chimera completed in 5 min 47 sec 
OBJFILE /var/www/html/3vee/output/2022/oct07/223/1jj2-2022.oct07.223.obj.gz 
Message: analyzing volume 
Message: normal CoM (-79.2, -105.0, -94.3) Å 
Message: reduced center failed 
Message: volume analysis completed in 1.28 sec 
Message: compressing 1jj2-2022.oct07.223.mrc 
Message: waiting for system load (3.21) to calm down, total wait time: 13 min 24 sec 
Message: waiting for systCOMMAND: gzip -v9 /var/www/html/3vee/output/2022/oct07/223/1jj2-2022.oct07.223.mrc 

/var/www/html/3vee/output/2022/oct07/223/1jj2-2022.oct07.223.mrc: 98.6% -- replaced with /var/www/h ... 
jj2-2022.oct07.223.mrc.gz 
... rundir: 
/var/www/html/3vee/output/2022/oct07/223 
COMPLETE SCRIPT:	26 min 9 sec 
em load (3.03) to calm down, total wait time: 13 min 32 sec 
Message: running now 
Message: waiting for system load (2.79) to calm down, total wait time: 13 min 38 sec 
Message: waiting for system load (2.64) to calm down, total wait time: 13 min 42 sec 
Message: running now 
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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