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The fluent stopped and errors with "Emergency: received SIGHUP signal"

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Old   December 3, 2013, 23:56
Default The fluent stopped and errors with "Emergency: received SIGHUP signal"
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yu. yuxuan
Join Date: Nov 2013
Posts: 21
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I give the simple case of flow around a cylinder with 3D.

And I have the dat and cas.

First, I save the "crosscylinder.txt" as
Code:
rc 3dcross.cas 
rd 3dcross.dat
solve/set/ri 1
file/auto/data 100
solve/set/time-step 1.0e-3
solve/dual 3000 30
exit
yes
and then I save the "nodes.txt" as
Code:
node1
node1
node1
node1
node1
node2
node2
node2
node2
node2
node3
node3
node3
node3
node3
node4
node4
node4
node4
node4
node6
node6
node6
node6
node6
node7
node7
node7
node7
node7
node8
node8
node8
node8
node8
node9
node9
node9
node9
node9
And finally I enter the command:
Code:
nohup fluent 3d -g -t40 -cnf=nodes.txt <crosscylinder.txt >& run_out.txt &
Then it runs, I close the ssh but after a while, I reopen it and find strange it has done. I open the run_out.txt

it shows

Code:
/public/Fluent.Inc/fluent6.3.26/bin/fluent -r6.3.26 3d -g -t40 -cnf=nodes.txt
/public/Fluent.Inc/fluent6.3.26/cortex/lnamd64/cortex.3.7.3 -f fluent -g (fluent "3d -pethernet  -host -r6.3.26 -t40 -mpi=hp -cnf=nodes.txt -path/public/Fluent.Inc")
Loading "/public/Fluent.Inc/fluent6.3.26/lib/fluent.dmp.114-64"
Done.
/public/Fluent.Inc/fluent6.3.26/bin/fluent -r6.3.26 3d -pethernet -host -t40 -mpi=hp -cnf=nodes.txt -path/public/Fluent.Inc -cx node1:55488:52817
Starting /public/Fluent.Inc/fluent6.3.26/lnamd64/3d_host/fluent.6.3.26 host -cx node1:55488:52817 "(list (rpsetvar (QUOTE parallel/function) "fluent 3d -node -r6.3.26 -t40 -pethernet -mpi=hp -cnf=nodes.txt ") (rpsetvar (QUOTE parallel/rhost) "") (rpsetvar (QUOTE parallel/ruser) "") (rpsetvar (QUOTE parallel/nprocs_string) "40") (rpsetvar (QUOTE parallel/auto-spawn?) #t) (rpsetvar (QUOTE parallel/trace-level) 0) (rpsetvar (QUOTE parallel/remote-shell) 0) (rpsetvar (QUOTE parallel/path) "/public/Fluent.Inc") (rpsetvar (QUOTE parallel/hostsfile) "nodes.txt") )"

     Welcome to Fluent 6.3.26

     Copyright 2006 Fluent Inc.
     All Rights Reserved

Loading "/public/Fluent.Inc/fluent6.3.26/lib/flprim.dmp.1119-64"
Done.
 
Host spawning Node 0 on machine "node1" (unix).
/public/Fluent.Inc/fluent6.3.26/bin/fluent -r6.3.26 3d -node -t40 -pethernet -mpi=hp -cnf=nodes.txt -mport 11.11.11.1:11.11.11.1:39975:0
Starting /public/Fluent.Inc/fluent6.3.26/multiport/mpi/lnamd64/hp/bin/mpirun -TCP -f /tmp/fluent-appfile.32453
HP-MPI licensed for execution of Fluent.

------------------------------------------------------------------------------
ID     Comm.   Hostname        O.S.        PID     Mach ID HW ID   Name        
------------------------------------------------------------------------------
n39    hp      node9           Linux-64    30380   7       39      Fluent Node 
n38    hp      node9           Linux-64    30379   7       38      Fluent Node 
n37    hp      node9           Linux-64    30378   7       37      Fluent Node 
n36    hp      node9           Linux-64    30377   7       36      Fluent Node 
n35    hp      node9           Linux-64    30376   7       35      Fluent Node 
n34    hp      node8           Linux-64    30258   6       34      Fluent Node 
n33    hp      node8           Linux-64    30257   6       33      Fluent Node 
n32    hp      node8           Linux-64    30256   6       32      Fluent Node 
n31    hp      node8           Linux-64    30255   6       31      Fluent Node 
n30    hp      node8           Linux-64    30254   6       30      Fluent Node 
n29    hp      node7           Linux-64    21390   5       29      Fluent Node 
n28    hp      node7           Linux-64    21389   5       28      Fluent Node 
n27    hp      node7           Linux-64    21388   5       27      Fluent Node 
n26    hp      node7           Linux-64    21387   5       26      Fluent Node 
n25    hp      node7           Linux-64    21386   5       25      Fluent Node 
n24    hp      node6           Linux-64    31184   4       24      Fluent Node 
n23    hp      node6           Linux-64    31183   4       23      Fluent Node 
n22    hp      node6           Linux-64    31182   4       22      Fluent Node 
n21    hp      node6           Linux-64    31181   4       21      Fluent Node 
n20    hp      node6           Linux-64    31180   4       20      Fluent Node 
------------------------------------------------------------------------------
ID     Comm.   Hostname        O.S.        PID     Mach ID HW ID   Name        
------------------------------------------------------------------------------
n19    hp      node4           Linux-64    4464    3       19      Fluent Node 
n18    hp      node4           Linux-64    4463    3       18      Fluent Node 
n17    hp      node4           Linux-64    4462    3       17      Fluent Node 
n16    hp      node4           Linux-64    4461    3       16      Fluent Node 
n15    hp      node4           Linux-64    4460    3       15      Fluent Node 
n14    hp      node3           Linux-64    4861    2       14      Fluent Node 
n13    hp      node3           Linux-64    4860    2       13      Fluent Node 
n12    hp      node3           Linux-64    4859    2       12      Fluent Node 
n11    hp      node3           Linux-64    4858    2       11      Fluent Node 
n10    hp      node3           Linux-64    4857    2       10      Fluent Node 
n9     hp      node2           Linux-64    31880   1       9       Fluent Node 
n8     hp      node2           Linux-64    31879   1       8       Fluent Node 
n7     hp      node2           Linux-64    31878   1       7       Fluent Node 
n6     hp      node2           Linux-64    31877   1       6       Fluent Node 
n5     hp      node2           Linux-64    31876   1       5       Fluent Node 
host   net     node1           Linux-64    32448   0       3       Fluent Host 
n4     hp      node1           Linux-64    886     0       4       Fluent Node 
n3     hp      node1           Linux-64    885     0       3       Fluent Node 
n2     hp      node1           Linux-64    875     0       2       Fluent Node 
n1     hp      node1           Linux-64    874     0       1       Fluent Node 
------------------------------------------------------------------------------
ID     Comm.   Hostname        O.S.        PID     Mach ID HW ID   Name        
------------------------------------------------------------------------------
n0*    hp      node1           Linux-64    873     0       0       Fluent Node 

Selected interconnect: ethernet (intra-machine comm. may use shared memory)
Multiple networks configured on the system.
Ensure optimal choice of network interface and FLUENT communicator!
------------------------------------------------------------------------------



Cleanup script file is /data2/yuxuan1/fluent_yu/cleanup-fluent-node1-32345

> 
Multicore processors detected. Processor affinity set!

Reading "3dcross.cas"...
  ...............................

 3716665 mixed cells, zone  2, binary.
  436999 mixed wall faces, zone  3, binary.
     900 quadrilateral outflow faces, zone  4, binary.
     900 quadrilateral velocity-inlet faces, zone  5, binary.
 7235738 triangular interior faces, zone  7, binary.
  750712 nodes, binary.
  750712 node flags, binary.

Parallel variables...
Building...
     grid,
	auto partitioning mesh by Principal Axes,
	distributing mesh
		parts........................................,
		faces........................................,
		nodes........................................,
		cells........................................,
     materials,
     interface,
     domains,
	mixture
     zones,
	default-interior
	inlet
	out
	wall
	fluid
     parallel,
     shell conduction zones,
Done.

> 
Reading "3dcross.dat"...
Done.

> 
> 
> 
> 
Updating solution at time levels N and N-1.
 done.
  iter continuity x-velocity y-velocity z-velocity     time/iter
     1 1.0000e+00 0.0000e+00 1.9817e-01 0.0000e+00  0:02:00   29
     2 1.0000e+00 8.2233e-02 2.8202e-01 1.2368e-01  0:01:47   28
     3 7.5318e-01 5.1804e-02 1.8773e-01 6.7147e-02  0:01:42   27
     4 7.0865e-01 3.4795e-02 1.3332e-01 4.1607e-02  0:01:34   26
     5 6.1694e-01 2.4261e-02 9.3280e-02 2.7437e-02  0:01:30   25
     6 5.3078e-01 1.6857e-02 6.4134e-02 1.8287e-02  0:01:24   24
     7 4.4468e-01 1.2238e-02 4.4114e-02 1.2837e-02  0:01:20   23
     8 3.7332e-01 9.3031e-03 3.1329e-02 9.6345e-03  0:01:14   22
     9 3.1383e-01 7.5078e-03 2.3555e-02 7.7173e-03  0:01:11   21
    10 2.6429e-01 6.1482e-03 1.8207e-02 6.2971e-03  0:01:05   20
    11 2.2146e-01 5.0780e-03 1.4359e-02 5.1781e-03  0:01:00   19
  iter continuity x-velocity y-velocity z-velocity     time/iter
    12 1.8712e-01 4.2387e-03 1.1677e-02 4.3130e-03  0:01:00   18
    13 1.5636e-01 3.5215e-03 9.3659e-03 3.5685e-03  0:00:55   17
    14 1.3141e-01 2.9258e-03 7.5777e-03 2.9520e-03  0:00:53   16
    15 1.0932e-01 2.4375e-03 6.1103e-03 2.4523e-03  0:00:50   15
    16 9.1535e-02 2.0260e-03 4.9179e-03 2.0318e-03  0:00:46   14
    17 7.5655e-02 1.6850e-03 3.9421e-03 1.6885e-03  0:00:41   13
    18 6.3182e-02 1.4022e-03 3.1841e-03 1.4054e-03  0:00:38   12
    19 5.2145e-02 1.1787e-03 2.5933e-03 1.1798e-03  0:00:35   11
    20 4.3678e-02 9.9243e-04 2.1458e-03 9.9356e-04  0:00:32   10
    21 3.6148e-02 8.4504e-04 1.7919e-03 8.4640e-04  0:00:29    9
    22 3.0480e-02 7.2229e-04 1.5279e-03 7.2424e-04  0:00:26    8
  iter continuity x-velocity y-velocity z-velocity     time/iter
    23 2.5416e-02 6.2711e-04 1.3153e-03 6.2795e-04  0:00:23    7
    24 2.1672e-02 5.4671e-04 1.1578e-03 5.4733e-04  0:00:19    6
    25 1.8307e-02 4.8453e-04 1.0295e-03 4.8560e-04  0:00:16    5
    26 1.5855e-02 4.3326e-04 9.3511e-04 4.3325e-04  0:00:13    4
    27 1.3640e-02 3.9316e-04 8.5722e-04 3.9327e-04  0:00:10    3
    28 1.2041e-02 3.6017e-04 8.0058e-04 3.5963e-04  0:00:07    2
    29 1.0600e-02 3.3488e-04 7.5414e-04 3.3472e-04  0:00:03    1
    30 9.5760e-03 3.1431e-04 7.2184e-04 3.1363e-04  0:00:00    0
Flow time = 0.001, time step = 1
2999 more time steps

Updating solution at time levels N and N-1.
 done.
  iter continuity x-velocity y-velocity z-velocity     time/iter
    30 9.5760e-03 3.1431e-04 7.2184e-04 3.1363e-04  0:01:36   30
    31 1.8268e-01 6.0783e-02 4.7032e-01 3.7919e-02  0:01:53   29
    32 6.2083e-01 6.4535e-02 3.1732e-01 4.5621e-02  0:01:48   28
    33 6.6755e-01 5.0592e-02 2.0070e-01 4.0007e-02  0:01:48   27
    34 6.4712e-01 3.8112e-02 1.4020e-01 3.2153e-02  0:01:40   26
    35 5.8688e-01 2.7391e-02 9.7392e-02 2.4129e-02  0:01:38   25

Emergency: received SIGHUP signal.

The application is busy.
Please wait a moment.
==============================================================================
Stack backtrace generated for process id 32345 on signal 1 :
fluent(tan+0x4852)[0x449ada]
/lib64/libc.so.6[0x2b5bd8d86c30]
/lib64/libc.so.6(__select+0x62)[0x2b5bd8e116e2]
fluent(listen_input+0xf7)[0x44a6f7]
fluent(tan+0x6c07)[0x44be8f]
fluent(lreadf+0x25)[0x4e8145]
fluent(eval+0x773)[0x4e4443]
fluent(eval+0x460)[0x4e4130]
fluent(eval+0x49a)[0x4e416a]
fluent[0x4e577c]
fluent(eval_errprotect+0x32)[0x4e5112]
fluent(eval+0x860)[0x4e4530]
fluent(eval+0x460)[0x4e4130]
fluent(eval+0x49a)[0x4e416a]
fluent(eval+0x460)[0x4e4130]
fluent(eval+0x49a)[0x4e416a]
Please include this information with any bug report you file on this issue!
==============================================================================


No error handler available

> The current data has not been saved.
OK to discard? [no]
No data created and errors with "Emergency: received SIGHUP signal"

PS1: I use the "LES" and "simplec with standard pressure"

PS2: I have seen the http://www.cfd-online.com/Forums/fluent/40133-error-while-running-parallel.html, but I manually give the nodes like the "nodes.txt" . why it also happens? And I want to ask in this thread but it may upset forum order because it was asked in 2010. So I ask again in my working conditions.

Thanks for looking and need help
yuyuxuan is offline   Reply With Quote

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3-dimensional, cylinders, parallel computing

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