Justin,
the root cause could be the length of $TMPDIR that might cause some path
being truncated.
you can check that by simply using a custom $TMPDIR that has the same
size than the original one
which version of OSX are you running ?
this might explain why Nathan nor i were able to reproduce the issue,
and i'd like to understand why this
issue went undetected by Open MPI
Cheers,
Gilles
On 9/23/2016 3:12 AM, Justin Chang wrote:
Oh, so setting this in my ~/.profile
export TMPDIR=/tmp
in fact solves my problem completely! Not sure why this is the case, but thanks!
Justin
On Thu, Sep 22, 2016 at 7:33 AM, Gilles Gouaillardet
<gilles.gouaillar...@gmail.com> wrote:
Justin,
i do not see this error on my laptop
which version of OS X are you running ?
can you try to
TMPDIR=/tmp mpirun -n 1
Cheers,
Gilles
On Thu, Sep 22, 2016 at 7:21 PM, Nathan Hjelm <hje...@me.com> wrote:
FWIW it works fine for me on my MacBook Pro running 10.12 with Open MPI 2.0.1
installed through homebrew:
✗ brew -v
Homebrew 1.0.0 (git revision c3105; last commit 2016-09-22)
Homebrew/homebrew-core (git revision 227e; last commit 2016-09-22)
✗ brew info openmpi
open-mpi: stable 2.0.1 (bottled), HEAD
High performance message passing library
https://www.open-mpi.org/
Conflicts with: lcdf-typetools, mpich
/usr/local/Cellar/open-mpi/2.0.1 (688 files, 8.3M) *
Poured from bottle on 2016-09-22 at 03:53:35
From: https://github.com/Homebrew/homebrew-core/blob/master/Formula/open-mpi.rb
==> Dependencies
Required: libevent ✔
==> Options
--c++11
Build using C++11 mode
--with-cxx-bindings
Enable C++ MPI bindings (deprecated as of MPI-3.0)
--with-java
Build with java support
--with-mpi-thread-multiple
Enable MPI_THREAD_MULTIPLE
--without-fortran
Build without fortran support
--HEAD
Install HEAD version
✗ type -p mpicc
mpicc is /usr/local/bin/mpicc
✗ mpirun --version
mpirun (Open MPI) 2.0.1
Report bugs to http://www.open-mpi.org/community/help/
✗ mpirun ./ring_c
Process 0 sending 10 to 1, tag 201 (4 processes in ring)
Process 0 sent to 1
Process 0 decremented value: 9
Process 0 decremented value: 8
Process 0 decremented value: 7
Process 0 decremented value: 6
Process 0 decremented value: 5
Process 0 decremented value: 4
Process 0 decremented value: 3
Process 0 decremented value: 2
Process 0 decremented value: 1
Process 0 decremented value: 0
Process 0 exiting
Process 1 exiting
Process 2 exiting
Process 3 exiting
-Nathan
On Sep 22, 2016, at 3:31 AM, Justin Chang <jychan...@gmail.com> wrote:
I tried that and also deleted everything inside $TMPDIR. The error
still persists
On Thu, Sep 22, 2016 at 4:21 AM, r...@open-mpi.org <r...@open-mpi.org> wrote:
Try removing the “pmix” entries as well
On Sep 22, 2016, at 2:19 AM, Justin Chang <jychan...@gmail.com> wrote:
"mpirun -n 1" was just to demonstrate that I get those error messages.
I ran a simple helloworld.c and it still gives those two messages.
I did delete openmpi-sessions-* from my $TMPDIR but it doesn't solve
the problem. Here's my $TMPDIR:
~ cd $TMPDIR
~ pwd
/var/folders/jd/qh5zn6jn5kz_byz9gxz5kl2m0000gn/T
~ ls
MediaCache
TemporaryItems
com.apple.AddressBook.ContactsAccountsService
com.apple.AddressBook.InternetAccountsBridge
com.apple.AirPlayUIAgent
com.apple.BKAgentService
com.apple.CalendarAgent
com.apple.CalendarAgent.CalNCService
com.apple.CloudPhotosConfiguration
com.apple.DataDetectorsDynamicData
com.apple.ICPPhotoStreamLibraryService
com.apple.InputMethodKit.TextReplacementService
com.apple.PhotoIngestService
com.apple.Preview
com.apple.Safari
com.apple.SocialPushAgent
com.apple.WeatherKitService
com.apple.cloudphotosd
com.apple.dt.XCDocumenter.XCDocumenterExtension
com.apple.dt.XcodeBuiltInExtensions
com.apple.geod
com.apple.iCal.CalendarNC
com.apple.lateragent
com.apple.ncplugin.stocks
com.apple.ncplugin.weather
com.apple.notificationcenterui.WeatherSummary
com.apple.photolibraryd
com.apple.photomoments
com.apple.quicklook.ui.helper
com.apple.soagent
com.getdropbox.dropbox.garcon
icdd501
ics21406
openmpi-sessions-501@Justins-MacBook-Pro-2_0
pmix-12195
pmix-12271
pmix-12289
pmix-12295
pmix-12304
pmix-12313
pmix-12367
pmix-12397
pmix-12775
pmix-12858
pmix-17118
pmix-1754
pmix-20632
pmix-20793
pmix-20849
pmix-21019
pmix-22316
pmix-8129
pmix-8494
xcrun_db
~ rm -rf openmpi-sessions-501@Justins-MacBook-Pro-2_0
~ mpirun -n 1
[Justins-MacBook-Pro-2.local:22527] [[12992,0],0] bind() failed on
error Address already in use (48)
[Justins-MacBook-Pro-2.local:22527] [[12992,0],0] ORTE_ERROR_LOG:
Error in file oob_usock_component.c at line 228
--------------------------------------------------------------------------
No executable was specified on the mpirun command line.
Aborting.
--------------------------------------------------------------------------
and when I type "ls" the directory
"openmpi-sessions-501@Justins-MacBook-Pro-2_0" reappeared. Unless
there's a different directory I need to look for?
On Thu, Sep 22, 2016 at 4:08 AM, r...@open-mpi.org <r...@open-mpi.org> wrote:
Maybe I’m missing something, but “mpirun -n 1” doesn’t include the name of an
application to execute.
The error message prior to that error indicates that you have some cruft
sitting in your tmpdir. You just need to clean it out - look for something that
starts with “openmpi”
On Sep 22, 2016, at 1:45 AM, Justin Chang <jychan...@gmail.com> wrote:
Dear all,
So I upgraded/updated my Homebrew on my Macbook and installed Open MPI
2.0.1 using "brew install openmpi". However, when I open up a terminal
and type "mpirun -n 1" I get the following messages:
~ mpirun -n 1
[Justins-MacBook-Pro-2.local:20793] [[13318,0],0] bind() failed on
error Address already in use (48)
[Justins-MacBook-Pro-2.local:20793] [[13318,0],0] ORTE_ERROR_LOG:
Error in file oob_usock_component.c at line 228
--------------------------------------------------------------------------
No executable was specified on the mpirun command line.
Aborting.
--------------------------------------------------------------------------
I have never seen anything like the first two lines. I also installed
python and mpi4py via pip, and when I still get the same messages:
~ python -c "from mpi4py import MPI"
[Justins-MacBook-Pro-2.local:20871] [[13496,0],0] bind() failed on
error Address already in use (48)
[Justins-MacBook-Pro-2.local:20871] [[13496,0],0] ORTE_ERROR_LOG:
Error in file oob_usock_component.c at line 228
But now if I add "mpirun -n 1" I get the following:
~ mpirun -n 1 python -c "from mpi4py import MPI"
[Justins-MacBook-Pro-2.local:20935] [[13560,0],0] bind() failed on
error Address already in use (48)
[Justins-MacBook-Pro-2.local:20935] [[13560,0],0] ORTE_ERROR_LOG:
Error in file oob_usock_component.c at line 228
[Justins-MacBook-Pro-2.local:20936] [[13560,1],0]
usock_peer_send_blocking: send() to socket 17 failed: Socket is not
connected (57)
[Justins-MacBook-Pro-2.local:20936] [[13560,1],0] ORTE_ERROR_LOG:
Unreachable in file oob_usock_connection.c at line 315
[Justins-MacBook-Pro-2.local:20936] [[13560,1],0]
orte_usock_peer_try_connect: usock_peer_send_connect_ack to proc
[[13560,0],0] failed: Unreachable (-12)
[Justins-MacBook-Pro-2:20936] *** Process received signal ***
[Justins-MacBook-Pro-2:20936] Signal: Segmentation fault: 11 (11)
[Justins-MacBook-Pro-2:20936] Signal code: (0)
[Justins-MacBook-Pro-2:20936] Failing at address: 0x0
-------------------------------------------------------
Primary job terminated normally, but 1 process returned
a non-zero exit code.. Per user-direction, the job has been aborted.
-------------------------------------------------------
--------------------------------------------------------------------------
mpirun detected that one or more processes exited with non-zero
status, thus causing
the job to be terminated. The first process to do so was:
Process name: [[13560,1],0]
Exit code: 1
--------------------------------------------------------------------------
Clearly something is wrong here. I already tried things like "rm -rf
$TMPDIR/openmpi-sessions-*" but said directory keeps reappearing and
the error persists. Why does this happen and how do I fix it? For what
it's worth, here's some other information that may help:
~ mpicc --version
Apple LLVM version 8.0.0 (clang-800.0.38)
Target: x86_64-apple-darwin15.6.0
Thread model: posix
InstalledDir:
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
I tested Hello World with both mpicc and mpif90, and they still work
despite showing those two error/warning messages.
Thanks,
Justin
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