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Subject: Re: [OMPI users] bug in MPI_File_set_view?
From: CANELA-XANDRI Oriol (Oriol.CAnela-Xandri_at_[hidden])
Date: 2014-05-15 10:55:44


This option seems that fix the problem!

Oriol

-- 
The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.
-----Original Message-----
From: users [mailto:users-bounces_at_[hidden]] On Behalf Of Edgar Gabriel
Sent: 15 May 2014 14:33
To: Open MPI Users
Subject: Re: [OMPI users] bug in MPI_File_set_view?
could you try just for curiosity to force to use OMPIO? e.g.
mpirun --mca io ompio ....
Thanks
Edgar
On 5/15/2014 3:56 AM, CANELA-XANDRI Oriol wrote:
> Hi, I installed and tried with version 1.8.1 but it also fails. I see the error when there are some processes without any matrix block. It's not a common situation, but this makes me feel unsure about I am not doing something wrong.  The error I get is:
> 
> *** Error in `./binary': free(): invalid size: 0x0000000000a34c00 *** 
> [oriol-VirtualBox:13975] *** Process received signal *** 
> [oriol-VirtualBox:13975] Signal: Aborted (6) [oriol-VirtualBox:13975] 
> Signal code:  (-6) [oriol-VirtualBox:13969] *** Process received 
> signal *** [oriol-VirtualBox:13969] Signal: Aborted (6) 
> [oriol-VirtualBox:13969] Signal code:  (-6) ======= Backtrace: 
> ========= /lib/x86_64-linux-gnu/libc.so.6(+0x80996)[0x7f5844a8d996]
> [oriol-VirtualBox:13969] [ 0] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x36ff0)[0x7f06a50a7ff0]
> [oriol-VirtualBox:13969] [ 1] 
> /lib/x86_64-linux-gnu/libc.so.6(gsignal+0x37)[0x7f06a50a7f77]
> [oriol-VirtualBox:13969] [ 2] 
> /lib/x86_64-linux-gnu/libc.so.6(abort+0x148)[0x7f06a50ab5e8]
> [oriol-VirtualBox:13969] [ 3] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x744fb)[0x7f06a50e54fb]
> [oriol-VirtualBox:13969] [ 4] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x80996)[0x7f06a50f1996]
> [oriol-VirtualBox:13969] [ 5] 
> /usr/local/lib/openmpi/mca_io_romio.so(ADIOI_Delete_flattened+0x62)[0x
> 7f0691e12c02] [oriol-VirtualBox:13969] [ 6] 
> /usr/local/lib/openmpi/mca_io_romio.so(ADIO_Close+0x1f9)[0x7f0691df718
> 9] [oriol-VirtualBox:13969] [ 7] 
> /usr/local/lib/openmpi/mca_io_romio.so(mca_io_romio_dist_MPI_File_clos
> e+0xe8)[0x7f0691de9dd8] [oriol-VirtualBox:13969] [ 8] 
> /usr/local/lib/libmpi.so.1(+0x3a2c6)[0x7f06a5ea02c6]
> [oriol-VirtualBox:13969] [ 9] 
> /usr/local/lib/libmpi.so.1(ompi_file_close+0x41)[0x7f06a5ea0811]
> [oriol-VirtualBox:13969] [10] 
> /usr/local/lib/libmpi.so.1(PMPI_File_close+0x78)[0x7f06a5edc118]
> [oriol-VirtualBox:13969] [11] ./binary[0x42099e] 
> [oriol-VirtualBox:13969] [12] ./binary[0x48ed86] 
> [oriol-VirtualBox:13969] [13] ./binary[0x40e49f] 
> [oriol-VirtualBox:13969] [14] 
> /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf5)[0x7f06a5092de5
> ] [oriol-VirtualBox:13969] [15] ./binary[0x40d679] 
> [oriol-VirtualBox:13969] *** End of error message *** 
> [oriol-VirtualBox:13975] [ 0] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x36ff0)[0x7f1857201ff0]
> [oriol-VirtualBox:13975] [ 1] 
> /lib/x86_64-linux-gnu/libc.so.6(gsignal+0x37)[0x7f1857201f77]
> [oriol-VirtualBox:13975] [ 2] 
> /lib/x86_64-linux-gnu/libc.so.6(abort+0x148)[0x7f18572055e8]
> [oriol-VirtualBox:13975] [ 3] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x744fb)[0x7f185723f4fb]
> [oriol-VirtualBox:13975] [ 4] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x80996)[0x7f185724b996]
> [oriol-VirtualBox:13975] [ 5] 
> /usr/local/lib/openmpi/mca_io_romio.so(ADIOI_Delete_flattened+0x62)[0x
> 7f18459d2c02] [oriol-VirtualBox:13975] [ 6] 
> /usr/local/lib/openmpi/mca_io_romio.so(ADIO_Close+0x1f9)[0x7f18459b718
> 9] [oriol-VirtualBox:13975] [ 7] 
> /usr/local/lib/openmpi/mca_io_romio.so(mca_io_romio_dist_MPI_File_clos
> e+0xe8)[0x7f18459a9dd8] [oriol-VirtualBox:13975] [ 8] 
> /usr/local/lib/libmpi.so.1(+0x3a2c6)[0x7f1857ffa2c6]
> [oriol-VirtualBox:13975] [ 9] 
> /usr/local/lib/libmpi.so.1(ompi_file_close+0x41)[0x7f1857ffa811]
> [oriol-VirtualBox:13975] [10] 
> /usr/local/lib/libmpi.so.1(PMPI_File_close+0x78)[0x7f1858036118]
> [oriol-VirtualBox:13975] [11] ./binary[0x42099e] 
> [oriol-VirtualBox:13975] [12] ./binary[0x48ed86] 
> [oriol-VirtualBox:13975] [13] ./binary[0x40e49f] 
> [oriol-VirtualBox:13975] [14] 
> /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf5)[0x7f18571ecde5
> ] [oriol-VirtualBox:13975] [15] ./binary[0x40d679] 
> [oriol-VirtualBox:13975] *** End of error message *** 
> [oriol-VirtualBox:13972] *** Process received signal *** 
> [oriol-VirtualBox:13972] Signal: Aborted (6) [oriol-VirtualBox:13972] 
> Signal code:  (-6) [oriol-VirtualBox:13972] [ 0] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x36ff0)[0x7f5844a43ff0]
> [oriol-VirtualBox:13972] [ 1] 
> /lib/x86_64-linux-gnu/libc.so.6(gsignal+0x37)[0x7f5844a43f77]
> [oriol-VirtualBox:13972] [ 2] 
> /lib/x86_64-linux-gnu/libc.so.6(abort+0x148)[0x7f5844a475e8]
> [oriol-VirtualBox:13972] [ 3] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x744fb)[0x7f5844a814fb]
> [oriol-VirtualBox:13972] [ 4] 
> /lib/x86_64-linux-gnu/libc.so.6(+0x80996)[0x7f5844a8d996]
> [oriol-VirtualBox:13972] [ 5] 
> /usr/local/lib/openmpi/mca_io_romio.so(ADIOI_Delete_flattened+0x62)[0x
> 7f58315f2c02] [oriol-VirtualBox:13972] [ 6] 
> /usr/local/lib/openmpi/mca_io_romio.so(ADIO_Close+0x1f9)[0x7f58315d718
> 9] [oriol-VirtualBox:13972] [ 7] 
> /usr/local/lib/openmpi/mca_io_romio.so(mca_io_romio_dist_MPI_File_clos
> e+0xe8)[0x7f58315c9dd8] [oriol-VirtualBox:13972] [ 8] 
> /usr/local/lib/libmpi.so.1(+0x3a2c6)[0x7f584583c2c6]
> [oriol-VirtualBox:13972] [ 9] 
> /usr/local/lib/libmpi.so.1(ompi_file_close+0x41)[0x7f584583c811]
> [oriol-VirtualBox:13972] [10] 
> /usr/local/lib/libmpi.so.1(PMPI_File_close+0x78)[0x7f5845878118]
> [oriol-VirtualBox:13972] [11] ./binary[0x42099e] 
> [oriol-VirtualBox:13972] [12] ./binary[0x48ed86] 
> [oriol-VirtualBox:13972] [13] ./binary[0x40e49f] 
> [oriol-VirtualBox:13972] [14] 
> /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf5)[0x7f5844a2ede5
> ] [oriol-VirtualBox:13972] [15] ./binary[0x40d679] 
> [oriol-VirtualBox:13972] *** End of error message ***
> ----------------------------------------------------------------------
> ---- mpirun noticed that process rank 2 with PID 13969 on node 
> oriol-VirtualBox exited on signal 6 (Aborted).
> ----------------------------------------------------------------------
> ----
> 
> 
--
Edgar Gabriel
Associate Professor
Parallel Software Technologies Lab      http://pstl.cs.uh.edu
Department of Computer Science          University of Houston
Philip G. Hoffman Hall, Room 524        Houston, TX-77204, USA
Tel: +1 (713) 743-3857                  Fax: +1 (713) 743-3335