[ifit-users] OFF file problem
Петр Коник
104pet104 at gmail.com
Mon Feb 11 17:29:43 CET 2019
Dear all!
We currently try to use a quiet large .off file to finely represent a
complex geometry guide. While mcstas itself works well (if executed
from the mcgui), ifit script, which we use to scan parameters,
irregularly crash. Here is the error - it looks like it is some
trouble with the array allocated sizes. Any ideas how to fix that?
Sorry for large text - we really don't know which part is important.
Best regards,
Peter Konik
mpirun -n 8 /tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.out
--ncount=1000000 --dir=/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/sim
L=15 guide_m=6 lambda=2
mpirun -n 8 /tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.out
--ncount=1000000 --dir=/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/sim
L=15 guide_m=6 lambda=2: Quit
Simulation 'H3'
(/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr): running
on 8 nodes (master is 'konik-N46JV', MPI version 3.1).
[H3] Initialize
[H3] Initialize
[H3] Initialize
[H3] Initialize
Loading geometry file (OFF/PLY): data/length/extra_fine/15.off
Number of vertices: 5694
[H3] Initialize
[H3] Initialize
[H3] Initialize
[H3] Initialize
Number of polygons: 11366
Warning: Neither xwidth, yheight or zdepth are defined.
The file-defined (non-scaled) geometry the OFF geometry
data/length/extra_fine/15.off will be applied!
Bounding box dimensions for geometry data/length/extra_fine/15.off:
Length=0.150000 (100.000%)
Width= 15.000000 (100.000%)
Depth= 0.150000 (100.000%)
*** stack smashing detected ***: <unknown> terminated
# McStas 2.5 - Dec. 12, 2018: [pid 13264] Signal 6 detected [proc 7]
SIGABRT (Abort)
# Simulation: H3 (/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr)
# Breakpoint: Octo_sm (Trace) 6.47 % ( 8089.0/ 125000.0)
# Date: Mon Feb 11 19:13:44 2019
# Started: Mon Feb 11 19:13:43 2019
# Last I/O Error: Function not implemented
# McStas 2.5 - Dec. 12, 2018: Simulation stop (abort).
# McStas 2.5 - Dec. 12, 2018: [pid 13258] Signal 15 detected [proc 6]
SIGTERM (Termination)
# Simulation: H3 (/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr)
# Breakpoint: screw (Trace) 20.96 % ( 26205.0/ 125000.0)
# Date: Mon Feb 11 19:13:45 2019
# Started: Mon Feb 11 19:13:43 2019
# McStas 2.5 - Dec. 12, 2018: Finishing simulation (save results and exit)
# McStas 2.5 - Dec. 12, 2018: [pid 13255] Signal 15 detected [proc 5]
SIGTERM (Termination)
# Simulation: H3 (/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr)
# Breakpoint: screw (Trace) 19.39 % ( 24240.0/ 125000.0)
# Date: Mon Feb 11 19:13:45 2019
# Started: Mon Feb 11 19:13:43 2019
# McStas 2.5 - Dec. 12, 2018: Finishing simulation (save results and exit)
Finally [H3: /tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/sim]. Time: 2 [s]
# McStas 2.5 - Dec. 12, 2018: [pid 13248] Signal 15 detected [proc 2]
SIGTERM (Termination)
# Simulation: H3 (/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr)
# Breakpoint: screw (Trace) 19.55 % ( 24443.0/ 125000.0)
# Date: Mon Feb 11 19:13:45 2019
# Started: Mon Feb 11 19:13:43 2019
# McStas 2.5 - Dec. 12, 2018: Finishing simulation (save results and exit)
Finally [H3: /tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/sim]. Time: 2 [s]
# McStas 2.5 - Dec. 12, 2018: [pid 13247] Signal 15 detected [proc 1]
SIGTERM (Termination)
# Simulation: H3 (/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr)
# Breakpoint: screw (Trace) 20.48 % ( 25600.0/ 125000.0)
# Date: Mon Feb 11 19:13:45 2019
# Started: Mon Feb 11 19:13:43 2019
# McStas 2.5 - Dec. 12, 2018: Finishing simulation (save results and exit)
Finally [H3: /tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/sim]. Time: 2 [s]
# McStas 2.5 - Dec. 12, 2018: [pid 13250] Signal 15 detected [proc 4]
SIGTERM (Termination)
# Simulation: H3 (/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr)
# Breakpoint: screw (Trace) 20.61 % ( 25768.0/ 125000.0)
# Date: Mon Feb 11 19:13:45 2019
# Started: Mon Feb 11 19:13:43 2019
# McStas 2.5 - Dec. 12, 2018: Finishing simulation (save results and exit)
# McStas 2.5 - Dec. 12, 2018: [pid 13249] Signal 15 detected [proc 3]
SIGTERM (Termination)
# Simulation: H3 (/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr)
# Breakpoint: screw (Trace) 26.14 % ( 32672.0/ 125000.0)
# Date: Mon Feb 11 19:13:45 2019
# Started: Mon Feb 11 19:13:43 2019
# McStas 2.5 - Dec. 12, 2018: Finishing simulation (save results and exit)
Finally [H3: /tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/sim]. Time: 2 [s]
# McStas 2.5 - Dec. 12, 2018: [pid 13246] Signal 15 detected [proc 0]
SIGTERM (Termination)
# Simulation: H3 (/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.instr)
# Breakpoint: screw (Trace) 20.70 % ( 25879.0/ 125000.0)
# Date: Mon Feb 11 19:13:45 2019
# Started: Mon Feb 11 19:13:43 2019
# McStas 2.5 - Dec. 12, 2018: Finishing simulation (save results and exit)
Save [H3]
[warn] Epoll ADD(4) on fd 49 failed. Old events were 0; read change
was 0 (none); write change was 1 (add): Bad file descriptor
[warn] Epoll ADD(4) on fd 43 failed. Old events were 0; read change
was 0 (none); write change was 1 (add): Bad file descriptor
--------------------------------------------------------------------------
mpirun noticed that process rank 7 with PID 0 on node konik-N46JV
exited on signal 3 (Quit).
--------------------------------------------------------------------------
Error: Could not evaluate Expression in model screw_n.instr McCode
[mccode] iF495774
self = iFunc_McCode (methods,doc,plot,code) 1D model: "screw_n.instr
McCode [mccode]"
Expression: UD = this.UserData; options=UD.options;if
~isempty(options.dir) && ...
Description: McCode virtual experiment screw_n.instr
Set UserData.options.monitor to specify a given monitor file pattern,
or [] to get the last.
Monitors are stored in UserData.monitors
Available monitors:
* Octo_large
* Octo_med
* Octo_sm
iData iD500632=load(iData,... [100 1] Intensity [n/s/bin](x)
"mccode.sim McCode sim file I=1.02353e+09 I_err=1.02353e+09 N=1
X0=0.0131313 dX=0;"
</tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/sim/Octo_sm_1549901622.vd>
Axis 1 "x" label is "Vert. Divergence [deg]", range [-0.1:0.1]
Tag: 'iF495774'
Date: '11-Feb-2019 19:12:49'
Name: 'screw_n.instr McCode [mccode]'
Parameters: {3×1 cell}
Guess: [10 6 5]
Constraint: [1×1 struct]
Dimension: 1
ParameterValues: [3×1 double]
UserData: [1×1 struct]
Duration: 0.7051
class: 'iFunc_McCode'
Parameters (3):
p( 1)= L=15
p( 2)= guide_m=6
p( 3)= lambda=2
Other Parameters:
''
'UD = this.UserData; options=UD.options;'
'if ~isempty(options.dir) && isempty(dir(options.dir));'
'try; mkdir(options.dir); end;'
'end;'
'if isempty(options.dir) || isempty(dir(options.dir));'
'options.dir=tempname;'
'mkdir(options.dir);'
'options.use_tmpdir = true;'
'else options.use_tmpdir = false;'
...
'ax='x,y,z,t';'
'nd=exist('t')+exist('z')+exist('y')+exist('x');'
'if min(nd,this.Dimension)>0, ax=eval([ '{'
ax(1:(2*min(nd,this.Dimension))) '}']); else ax={}; end;'
'if ~isempty(ax) && exist('x') && ~isempty(x) &&
~all(isnan(x(:))), signal = interp(signal, ax{:});'
'else x=getaxis(signal,1); y=getaxis(signal,2);
z=getaxis(signal,3); t=getaxis(signal,4); end;'
'end;'
Name Size Bytes Class Attributes
ME 1x1 3878 MException
UD 1x1 1029966 struct
cmd 1x163 326 char
duration 1x1 8 double
f 0x1 0 cell
iFunc_ax 1x14 28 char
iFunc_dim 1x1 8 double
iFunc_t0 1x6 48 double
iFunc_this 1x1 1070328 iFunc_McCode
index 0x0 0 double
options 1x1 2461 struct
p 1x3 24 double
result 1x4667 9334 char
signal 0x0 0 double
status 1x1 8 double
struct_p 1x1 552 struct
this 1x1 1070328 iFunc_McCode
varargin 1x0 0 cell
x 51x1 408 double
Error using iFunc/feval>iFunc_feval_expr (line 414)
Model screw_n.instr McCode [mccode] iF495774 failed to execute mpirun
-n 8 /tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/screw_n.out
--ncount=1000000 --dir=/tmp/tp538a3bb9_21a0_4166_b4ea_597a15889e55/sim
L=15 guide_m=6 lambda=2
iFunc:feval: Saved state in
/media/konik/a09e43d5-7f1d-47d7-b0ae-2df53071d43b/JOB/Octagon-guide/Octagon-guide/simulation/iFunc_feval_error
Error using iFunc/feval>iFunc_feval_expr (line 432)
Failed model evaluation. Saved state in
/media/konik/a09e43d5-7f1d-47d7-b0ae-2df53071d43b/JOB/Octagon-guide/Octagon-guide/simulation/iFunc_feval_error
Error in iFunc/feval (line 344)
[signal,ax,p,model,duration] = iFunc_feval_expr(model, varargin{:});
Error in iFunc_McCode/feval (line 139)
[signal, self, ax, name] = feval at iFunc(self, varargin{:});
Error in iData>iData_iFunc2iData (line 268)
[signals, this_in, axs, names] = feval(this_in, varargin{:});
Error in iData (line 189)
[this_out, this_in] = iData_iFunc2iData(this_in, axes_in,
varargin{2:end});
Error in screw_length_scan (line 42)
results = iData(model,parameters);
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