Re: [SIESTA-L] error: forrtl: severe (174): SIGSEGV, segmentation fault

mudra . msu Tue, 26 Aug 2014 01:55:40 -0700

Even after applying the change of BLACS and SCALAPACK‎ as you mentioned,the compilation finishes successfully bt the program doesn't execute with 2 cores also. Though it works for 1 core. i.e.serial with MPI. Is it that for parallel job we need some amount of bigger system? Can that be the reason for this error? What may be wrong in compilation?

Thanks,

M Dave

From: Nick Papior Andersen

Sent: Monday 25 August 2014 16:37

To: [email protected]

Reply To: [email protected]

Subject: Re: [SIESTA-L] error: forrtl: severe (174): SIGSEGV, segmentation fault

Have you tried running on only 2 cores?

But, yes, I have now checked your arch.make. You should rely on only one or the other integer precision, lp64 or ilp64.

Change:

SCALAPACK_LIBS=/opt/intel/mkl/10.0.1.014/lib/em64t/libmkl_scalapack_ilp64.a

SCALAPACK_LIBS=/opt/intel/mkl/10.0.1.014/lib/em64t/libmkl_scalapack_lp64.a

I am not too familiar with that old version of intel, if you have the possibility to update to a later version I would highly advise you to do so.

2014-08-25 12:57 GMT+02:00 <[email protected]>:

Thank you for the reply.
I tried with less number of cores also. But the error is persistent. I am new to siesta. So have no idea if I need to give any parameters for parallel run in fdf file.

Also if it is mistake of compilation, where I might be going wrong.

M Dave
Research Student
The M S University of Baroda. Gujarat.
India

From: Nick Papior Andersen
Sent: Monday 25 August 2014 16:22
To: [email protected]
Reply To: [email protected]

Subject: Re: [SIESTA-L] error: forrtl: severe (174): SIGSEGV, segmentation fault

First try and reduce number of cores, one Fe atom with 8 cores is maybe a bit too much...

2014-08-25 12:36 GMT+02:00 <[email protected]>:

Original Message

Dear Siesta User,

I am trying to run parallel siesta using lam-mpi on 8 nodes.
I could compile in Obj directory,but on running the program for
example Fe of the package,i am getting this error.

outcell: Cell vector modules (Ang) : 2.485493 2.485493 2.485493
outcell: Cell angles (23,13,12) (deg): 109.4712 70.5288 70.5288
outcell: Cell volume (Ang**3) : 11.8200
New_DM. Step: 1
Initializing Density Matrix...

initdm: Initial spin polarization (Qup-Qdown) = 4.000000

InitMesh: MESH = 16 x 16 x 16 = 4096
InitMesh: Mesh cutoff (required, used) = 150.000 171.794 Ry

* Maximum dynamic memory allocated = 7 MB
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line
Source
siesta 0000000000837F53 Unknown Unknown Unknown
siesta 00000000007A1945 Unknown Unknown Unknown
siesta 000000000079E718 Unknown Unknown Unknown
siesta 00000000004C7FCF Unknown Unknown Unknown
siesta 0000000000442972 Unknown Unknown Unknown
siesta 0000000000433DAD Unknown Unknown Unknown
siesta 00000000004FD92C Unknown Unknown Unknown
siesta 0000000000521083 Unknown Unknown Unknown
siesta 00000000005211F7 Unknown Unknown Unknown
siesta 0000000000407462 Unknown Unknown Unknown
libc.so.6 000000329181D8A4 Unknown Unknown Unknown
siesta 00000000004073A9 Unknown Unknown Unknown
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line
Source
siesta 0000000000837F53 Unknown Unknown Unknown
siesta 00000000007A1945 Unknown Unknown Unknown
siesta 000000000079E718 Unknown Unknown Unknown
siesta 00000000004C7FCF Unknown Unknown Unknown
siesta 0000000000442972 Unknown Unknown Unknown
siesta 0000000000433DAD Unknown Unknown Unknown
siesta 00000000004FD92C Unknown Unknown Unknown
siesta 0000000000521083 Unknown Unknown Unknown
siesta 00000000005211F7 Unknown Unknown Unknown
siesta 0000000000407462 Unknown Unknown Unknown
libc.so.6 000000329181D8A4 Unknown Unknown Unknown
siesta 00000000004073A9 Unknown Unknown Unknown
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line
Source
siesta 0000000000837F53 Unknown Unknown Unknown
siesta 00000000007A1945 Unknown Unknown Unknown
siesta 000000000079E718 Unknown Unknown Unknown
siesta 00000000004C7FCF Unknown Unknown Unknown
siesta 0000000000442972 Unknown Unknown Unknown
siesta 0000000000433DAD Unknown Unknown Unknown
siesta 00000000004FD92C Unknown Unknown Unknown
siesta 0000000000521083 Unknown Unknown Unknown
siesta 00000000005211F7 Unknown Unknown Unknown
siesta 0000000000407462 Unknown Unknown Unknown
libc.so.6 000000329181D8A4 Unknown Unknown Unknown
siesta 00000000004073A9 Unknown Unknown Unknown
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line
Source
siesta 0000000000837F53 Unknown Unknown Unknown
siesta 00000000007A1945 Unknown Unknown Unknown
siesta 000000000079E718 Unknown Unknown Unknown
siesta 00000000004C7FCF Unknown Unknown Unknown
siesta 0000000000442972 Unknown Unknown Unknown
siesta 0000000000433DAD Unknown Unknown Unknown
siesta 00000000004FD92C Unknown Unknown Unknown
siesta 0000000000521083 Unknown Unknown Unknown
siesta 00000000005211F7 Unknown Unknown Unknown
siesta 0000000000407462 Unknown Unknown Unknown
libc.so.6 000000329181D8A4 Unknown Unknown Unknown
siesta 00000000004073A9 Unknown Unknown Unknown
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line
Source
siesta 0000000000837F53 Unknown Unknown Unknown
siesta 00000000007A1945 Unknown Unknown Unknown
siesta 000000000079E718 Unknown Unknown Unknown
siesta 00000000004C7FCF Unknown Unknown Unknown
siesta 0000000000442972 Unknown Unknown Unknown
siesta 0000000000433DAD Unknown Unknown Unknown
siesta 00000000004FD92C Unknown Unknown Unknown
siesta 0000000000521083 Unknown Unknown Unknown
siesta 00000000005211F7 Unknown Unknown Unknown
siesta 0000000000407462 Unknown Unknown Unknown
libc.so.6 000000329181D8A4 Unknown Unknown Unknown
siesta 00000000004073A9 Unknown Unknown Unknown
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line
Source
siesta 0000000000837F53 Unknown Unknown Unknown
siesta 00000000007A1945 Unknown Unknown Unknown
siesta 000000000079E718 Unknown Unknown Unknown
siesta 00000000004C7FCF Unknown Unknown Unknown
siesta 0000000000442972 Unknown Unknown Unknown
siesta 0000000000433DAD Unknown Unknown Unknown
siesta 00000000004FD92C Unknown Unknown Unknown
siesta 0000000000521083 Unknown Unknown Unknown
siesta 00000000005211F7 Unknown Unknown Unknown
siesta 0000000000407462 Unknown Unknown Unknown
libc.so.6 000000329181D8A4 Unknown Unknown Unknown
siesta 00000000004073A9 Unknown Unknown Unknown
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line
Source
siesta 0000000000837F53 Unknown Unknown Unknown
siesta 00000000007A1945 Unknown Unknown Unknown
siesta 000000000079E718 Unknown Unknown Unknown
siesta 00000000004C7FCF Unknown Unknown Unknown
siesta 0000000000442972 Unknown Unknown Unknown
siesta 0000000000433DAD Unknown Unknown Unknown
siesta 00000000004FD92C Unknown Unknown Unknown
siesta 0000000000521083 Unknown Unknown Unknown
siesta 00000000005211F7 Unknown Unknown Unknown
siesta 0000000000407462 Unknown Unknown Unknown
libc.so.6 000000329181D8A4 Unknown Unknown Unknown
siesta 00000000004073A9 Unknown Unknown Unknown
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line
Source
siesta 0000000000837F53 Unknown Unknown Unknown
siesta 00000000007A1945 Unknown Unknown Unknown
siesta 000000000079E718 Unknown Unknown Unknown
siesta 00000000004C7FCF Unknown Unknown Unknown
siesta 0000000000442972 Unknown Unknown Unknown
siesta 0000000000433DAD Unknown Unknown Unknown
siesta 00000000004FD92C Unknown Unknown Unknown
siesta 0000000000521083 Unknown Unknown Unknown
siesta 00000000005211F7 Unknown Unknown Unknown
siesta 0000000000407462 Unknown Unknown Unknown
libc.so.6 000000329181D8A4 Unknown Unknown Unknown
siesta 00000000004073A9 Unknown Unknown Unknown
-----------------------------------------------------------------------------
One of the processes started by mpirun has exited with a nonzero exit
code. This typically indicates that the process finished in error.
If your process did not finish in error, be sure to include a "return
0" or "exit(0)" in your C code before exiting the application.

PID 19071 failed on node n0 (127.0.0.1) with exit status 174.
-----------------------------------------------------------------------------

I attach here the arch.make file.

PLease guide for this error.

--
Kind regards Nick

Kind regards Nick

Re: [SIESTA-L] error: forrtl: severe (174): SIGSEGV, segmentation fault

Responder a