[CIG-SHORT] missing installation files v1.8
Birendra jha
bjha7333 at yahoo.com
Fri Jun 5 16:48:24 PDT 2015
Brad
One of the tests is failing:
make[7]: Entering directory `/galileo/home/usera06agi/a06agi25/build/pylith/pylith-build/unittests/libtests/bc'
--------------------------------------------------------------------------
Error obtaining unique transport key from ORTE (orte_precondition_transports not present in
the environment).
Local host: node171
--------------------------------------------------------------------------
--------------------------------------------------------------------------
It looks like MPI_INIT failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during MPI_INIT; some of which are due to configuration or environment
problems. This failure appears to be an internal failure; here's some
additional information (which may only be relevant to an Open MPI
developer):
PML add procs failed
--> Returned "Error" (-1) instead of "Success" (0)
--------------------------------------------------------------------------
[node171:2483] *** An error occurred in MPI_Init_thread
[node171:2483] *** on a NULL communicator
[node171:2483] *** Unknown error
[node171:2483] *** MPI_ERRORS_ARE_FATAL: your MPI job will now abort
--------------------------------------------------------------------------
An MPI process is aborting at a time when it cannot guarantee that all
of its peer processes in the job will be killed properly. You should
double check that everything has shut down cleanly.
Reason: Before MPI_INIT completed
Local host: node171
PID: 2483
--------------------------------------------------------------------------
FAIL: testbc
Any suggestions?
Birendra
--------------------------------------------
On Fri, 6/5/15, Brad Aagaard <baagaard at usgs.gov> wrote:
Subject: Re: [CIG-SHORT] missing installation files v1.8
To: cig-short at geodynamics.org
Date: Friday, June 5, 2015, 12:53 PM
Birendra,
https://geodynamics.org/cig/software/spatialdata/
I updated the package entry on
geodynamics.org, so now this shows up
under
"Computational Science" and it is no longer
hidden.
Thanks for pointing
this out!
Cheers,
Brad
On
06/05/2015 09:41 AM, Birendra jha wrote:
> Brad
>
> Thanks. Quick question: where can I find
spatialdata? It's neither on geodynamics nor on geoweb
website.
>
>
regards
> Birendra
>
--------------------------------------------
> On Thu, 6/4/15, Brad Aagaard <baagaard at usgs.gov>
wrote:
>
> Subject: Re: [CIG-SHORT]
missing installation files v1.8
> To: cig-short at geodynamics.org
> Date: Thursday, June 4, 2015,
12:29 PM
>
> Birendra,
>
> The
configure line to nemesis
> is missing CC=mpicc
CXX=mpicxx
>
> This was added on Nov 30,
2012
> (https://github.com/geodynamics/pylith_installer/commit/3d75ee30dc708622244324b1a537f6e0a4db4b9b),
>
> which
may have been a patch after the
> installer version you are
using.
>
> Note that we have a complete
history of the
> commits for
the installer
> via Git, but
we
> only have a complete
history of the installer tags going
> back to v1.9.0-2 when we
started tagging things
> in
Git.
>
> There are a number
> of patches that have been
made to the installer since
> v1.8.0 was released. A few of
these fix
> problems while
others are more
> cosmetic
or
> update to new verions
of dependencies.
>
> If you encounter additional
problems, I suggest
> you
download the current
> installer and do a
> diff of the Makefile or
peruse the commits of the
> installer Git repo and cherry
pick the
> appropriate
updates.
>
> Regards,
> Brad
>
>
> On
06/04/2015
> 08:33 AM,
Birendra jha wrote:
> >
Brad
> >
> > I am getting missing
> MPI library error:
> >
> >
> configure: downloading
missing Python dependencies
> > configure: building
Python dependencies
> >
checking for egg-related flags... ok
> > checking for library
containing
> MPI_Init...
no
> > configure: error:
MPI
> library not found
> > make[3]: Entering
> directory
> `/galileo/home/usera06agi/a06agi25/build/pylith/nemesis-build'
> >
> > I have attached
> nemesis-build/config.log and
build/pylith/config.log
> >
> > I have added openmpi
> in the path:
> > [a06agi25 at node171
> nemesis-build]$ which
mpicc
> >
> /developers/devenv/prod/opt/compilers/openmpi/1.6.4/gnu--4.7.2/bin/mpicc
> >
> > So I don't
> understand why it calls gcc
instead of mpicc in the nemesis
> config.log:
> >
> >
> configure:4206: checking for
library containing MPI_Init
> > configure:4237: gcc -o
conftest -g -O2
> -I/galileo/home/usera06agi/a06agi25/pylith/include
> -L/galileo/home/usera06agi/a06agi25/pylith/lib
> conftest.c
> >
> >
> Thanks
> > Birendra
> >
> --------------------------------------------
> > On Tue, 5/26/15, Brad
Aagaard <baagaard at usgs.gov>
> wrote:
> >
> > Subject:
Re: [CIG-SHORT]
> missing
installation files v1.8
> > To: cig-short at geodynamics.org
> > Date:
Tuesday, May 26, 2015,
> 2:32 PM
> >
> > Birendra,
> >
> > It is
> looking for merlin,
> > which
> was not migrated over to the
"new"
> > geodynamics
website because
> it is no
longer
> > needed
by
> pythia (or
> > supported).
You
> can
> > get merlin
from
> > https://pypi.python.org/pypi/merlin/1.0
> >
> > Regards,
> > Brad
> >
> >
> > On
> 05/26/2015 11:23 AM, Birendra
jha wrote:
> > > Hi
Brad
> > >
> > > I am
getting error
> during
'make'
> > at
> nemesis:
> > >
> > >
> > configure:
downloading
> missing Python
dependencies
> > >
configure: error: in
> > `/galileo/home/usera06agi/a06agi25/build/pylith/nemesis-build':
> > >
configure: error: cannot
> download missing
> > Python
> dependencies
> > >
> > > I have
attached
> build/pyith/config.log and
> > build/pylith/nemesis-build/config.log
> > >
> > > Any
help will be
> > appreciated.
> > >
Birendra
> > >
> > >
> > --------------------------------------------
> > > On
Fri, 5/15/15, Brad
> Aagaard
<baagaard at usgs.gov>
> > wrote:
> > >
> > > Subject:
> Re: [CIG-SHORT]
> > missing
> installation files v1.8
> > > To:
cig-short at geodynamics.org
> > > Date:
> Friday, May 15, 2015,
> > 10:48 AM
> > >
> > > Birendra,
> > >
> > > CIG
his
> > migrated
the files to
> > > a
> > new
webserver
> > > http://geoweb.cse.ucdavis.edu/~buildbot/deps
> > >
> > > Regards,
> > > Brad
> > >
> > >
> > > On
> > > 05/15/2015
> 06:26 AM, Birendra
> > jha
> wrote:
> > > >
> Hello
> > developers
> > > >
> > > >
I am
> trying to install
> > pylith-1.8.0
using
> > > the
> > installer
and I get 404
> error.
> > > >
> > > >
> Downloading
> > cppunit-1.12.1.tar.gz
from
> > > http://geodynamics.org/~buildbot/deps.
> > > >
> > > --2015-05-15
> 15:22:04-- http://geodynamics.org/~buildbot/deps/cppunit-1.12.1.tar.gz
> > > >
> Resolving
> > geodynamics.org
> > > (geodynamics.org)...
> > 128.120.246.102,
> > > 2607:f810:c20:1c:a800:ff:fe59:2234
> > > >
> > > Connecting
> to
> > geodynamics.org
> > > (geodynamics.org)|128.120.246.102|:80...
> > connected.
> > > >
> HTTP
> > request
sent,
> awaiting
response...
> > > 404
Not
> Found
> > > >
> 2015-05-15 15:22:05
> > ERROR
> > > 404:
Not
> Found.
> > > >
> > > >
I
> > > understand
> that latest
> > version
is
> recommended but I
need
> > > this
> version because of some
> > earlier
work. Where can I
> get
> > > these
files
> now?
> > > >
> > > >
> > > Thanks
> > > >
> Birendra
> > > >
> > > _______________________________________________
> > > >
> CIG-SHORT mailing
> > list
> > > >
CIG-SHORT at geodynamics.org
> > > >
http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-short
> > > >
> > >
> > > _______________________________________________
> > > CIG-SHORT
> mailing list
> > > CIG-SHORT at geodynamics.org
> > > http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-short
> > >
> > >
> > >
> > >
> > _______________________________________________
> > >
CIG-SHORT mailing
> list
> > > CIG-SHORT at geodynamics.org
> > > http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-short
> > >
> >
> > _______________________________________________
> > CIG-SHORT
mailing list
> > CIG-SHORT at geodynamics.org
> > http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-short
> >
> >
> >
> >
> _______________________________________________
> > CIG-SHORT mailing
list
> > CIG-SHORT at geodynamics.org
> > http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-short
> >
>
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