ERROR: CoinOptServices #25

zazadi · 2016-11-01T20:30:16Z

Hi,

I am trying install CoinOptServices on a linux 64 bit system. But I get an error while building the package. The error is:

===========================[ ERROR: CoinOptServices ]===========================

LoadError: failed process: Process(patch -p1 -d .., ProcessExited(1)) [1]
while loading /home/zazadi/.julia/v0.5/CoinOptServices/deps/build.jl, in expression starting on line 69

================================================================================

================================[ BUILD ERRORS ]================================

WARNING: CoinOptServices had build errors.

packages with build errors remain installed in /home/zazadi/.julia/v0.5
build the package(s) and all dependencies with Pkg.build("CoinOptServices")
build a single package by running its deps/build.jl script

================================================================================

Thanks for your help!
Zahra

The text was updated successfully, but these errors were encountered:

tkelman · 2016-11-02T03:29:23Z

Sort of a duplicate of #4. Try deleting /home/zazadi/.julia/v0.5/CoinOptServices/deps/src and /home/zazadi/.julia/v0.5/CoinOptServices/deps/usr then re-running Pkg.build("CoinOptServices").

zazadi · 2016-11-02T20:49:49Z

===============================================[ ERROR: CoinOptServices ]================================================

LoadError: failed process: Process(`make`, ProcessExited(2)) [2]
while loading /home/zazadi/.julia/v0.5/CoinOptServices/deps/build.jl, in expression starting on line 69

=========================================================================================================================

====================================================[ BUILD ERRORS ]=====================================================

WARNING: CoinOptServices had build errors.

 - packages with build errors remain installed in /home/zazadi/.julia/v0.5
 - build the package(s) and all dependencies with `Pkg.build("CoinOptServices")`
 - build a single package by running its `deps/build.jl` script

===========================================================================================

I got this error after applying what you suggested.

tkelman · 2016-11-02T23:55:31Z

that's not the useful part of the error message. post the entire output to https://gist.github.com and leave a link here

zazadi · 2016-11-03T12:58:06Z

Here is the link:
https://gist.github.com/zazadi/980cc024fd34dd6f0cc45fa365159aa9

Thanks,

On Wed, Nov 2, 2016 at 7:55 PM, Tony Kelman notifications@github.com
wrote:

that's not the useful part of the error message. post the entire output to
https://gist.github.com
https://urldefense.proofpoint.com/v2/url?u=https-3A__gist.github.com&d=CwMCaQ&c=Ngd-ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=2kf2-euD79hYvD-HezRW4OYGC3qwHXl9GPPfYCjQ1TI&m=pNpQmDPU1LUvddDlKSgmSIQF3S8jLsxbDoL2o6huBiI&s=LizAIIhpj_T1MthAazfW7gn77urZst4GYUVk6ve2btU&e=
and leave a link here

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tkelman · 2016-11-03T13:00:24Z

make[2]: *** [FixPointConstructors.lo] Killed

that suggests you're running out of memory. What operating system and compiler version are you using?

zazadi · 2016-11-03T13:10:12Z

This is basically a high-performance computing cluster:

Currently comprises 1,978 compute nodes (20,728 cores) + 598 NVIDIA
Tesla GPU accelerators
InfiniBand and Myrinet network interconnects between compute nodes
Operating system on all nodes: Scientific Linux 6 (based on RedHat
Enterprise Linux)

On Thu, Nov 3, 2016 at 9:00 AM, Tony Kelman notifications@github.com
wrote:

make[2]: *** [FixPointConstructors.lo] Killed

that suggests you're running out of memory. What operating system and
compiler version are you using?

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zazadi · 2016-11-03T13:12:28Z

Also I checked my account available memory and I have about 95.8 GB.

On Thu, Nov 3, 2016 at 9:10 AM, Zahra Azadi zazadi@g.clemson.edu wrote:

This is basically a high-performance computing cluster:

Currently comprises 1,978 compute nodes (20,728 cores) + 598 NVIDIA
Tesla GPU accelerators

InfiniBand and Myrinet network interconnects between compute nodes

Operating system on all nodes: Scientific Linux 6 (based on RedHat
Enterprise Linux)

On Thu, Nov 3, 2016 at 9:00 AM, Tony Kelman notifications@github.com
wrote:

make[2]: *** [FixPointConstructors.lo] Killed

that suggests you're running out of memory. What operating system and
compiler version are you using?

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.

tkelman · 2016-11-03T13:12:36Z

Do you have a low memory ulimit or something? It's getting killed while compiling the C++ library, which suggests you wouldn't be able to build couenne outside of Julia either.

zazadi · 2016-11-03T13:18:21Z

But I have about 98.5 GB free memory!

On Thu, Nov 3, 2016 at 9:12 AM, Tony Kelman notifications@github.com
wrote:

Do you have a low memory ulimit or something? It's getting killed while
compiling the C++ library, which suggests you wouldn't be able to build
couenne outside of Julia either.

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tkelman · 2016-11-03T13:24:03Z

If the ulimit is set really low then processes might get killed anyway. Sysadmins on giant clusters seem to love setting low ulimits, I guess so one person can't use all of the memory? If you are able to read dmesg you'll probably see the out-of-memory or ulimit killer terminating the compiler here.

Maybe you could try submitting a small compute job to do the compilation, since the ulimits are probably specific to the login nodes.

zazadi · 2016-11-03T14:11:46Z

I see that before installing Julia I should have some required dependencies
such as GCC. Do you think that it might be the reason that I may miss some
of them.

Thanks,

On Thu, Nov 3, 2016 at 9:24 AM, Tony Kelman notifications@github.com
wrote:

If the ulimit is set really low then processes might get killed anyway.
Sysadmins on giant clusters seem to love setting low ulimits, I guess so
one person can't use all of the memory? If you are able to read dmesg
you'll probably see the out-of-memory or ulimit killer terminating the
compiler here.

Maybe you could try submitting a small compute job to do the compilation,
since the ulimits are probably specific to the login nodes.

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tkelman · 2016-11-03T14:24:23Z

No, that wouldn't successfully compile up to one particular C++ source file in the middle of Couenne and be killed there. Some user resource limit set too low by a sysadmin on your login node is killing the compiler process.

mattheu94 · 2016-12-03T12:03:29Z

Hi, i have a problema like this, my error message is that:

checking for COIN-OR package CoinDepend... skipped check via pkg-config, redirect to fallback
checking for COIN-OR package CoinDepend (fallback)... no, dependency coinutils not available
configure: error: Required package CoinUtils or Osi not available.
configure: error: /bin/bash '../../SYMPHONY/configure' failed for SYMPHONY
===========================[ ERROR: CoinOptServices ]===========================

LoadError: failed process: Process(setenv(../configure --prefix=/home/cacciola/.julia/v0.5/CoinOptServices/deps/usr --enable-dependency-linking coin_skip_warn_cflags=yes coin_skip_warn_cxxflags=yes coin_skip_warn_fflags=yes '--with-coinutils-lib=-L/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib -lCoinUtils' --with-coinutils-incdir=/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib/../include/coin '--with-osi-lib=-L/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib -lOsi -lCoinUtils' --with-osi-incdir=/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib/../include/coin '--with-clp-lib=-L/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib -lClp -lOsiClp' --with-clp-incdir=/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib/../include/coin '--with-cgl-lib=-L/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib -lCgl' --with-cgl-incdir=/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib/../include/coin '--with-cbc-lib=-L/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib -lCbc' --with-cbc-incdir=/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib/../include/coin '--with-blas=-L/home/cacciola/.julia/v0.5/Ipopt/deps/usr/lib -lcoinblas' '--with-lapack=-L/home/cacciola/.julia/v0.5/Ipopt/deps/usr/lib -lcoinlapack' '--with-mumps-lib=-L/home/cacciola/.julia/v0.5/Ipopt/deps/usr/lib -lcoinmumps' '--with-ipopt-lib=-L/home/cacciola/.julia/v0.5/Ipopt/deps/usr/lib -lipopt',String["PATH=/usr/local/bin:/usr/bin:/bin:/usr/local/games:/usr/games","PWD=/home/cacciola","SHELL=/bin/sh","SSH_CONNECTION=93.32.74.180 62035 10.0.0.8 22","OPENBLAS_NUM_THREADS=8","MAIL=/var/mail/cacciola","LANG=it_IT.UTF-8","LOGNAME=cacciola","XDG_RUNTIME_DIR=/run/user/1006","XDG_SESSION_ID=706","PKG_CONFIG_PATH=/home/cacciola/.julia/v0.5/Cbc/deps/usr/lib/pkgconfig:/home/cacciola/.julia/v0.5/Ipopt/deps/usr/lib/pkgconfig","SSH_CLIENT=93.32.74.180 62035 22","USER=cacciola","SSH_TTY=/dev/pts/2","HOME=/home/cacciola","TERM=xterm","OPENBLAS_MAIN_FREE=1"]), ProcessExited(1)) [1]
while loading /home/cacciola/.julia/v0.5/CoinOptServices/deps/build.jl, in expression starting on line 69

================================================================================

================================[ BUILD ERRORS ]================================

WARNING: CoinOptServices had build errors.

packages with build errors remain installed in /home/cacciola/.julia/v0.5
build the package(s) and all dependencies with Pkg.build("CoinOptServices")
build a single package by running its deps/build.jl script

================================================================================

rickyars · 2017-02-15T00:15:04Z

@mattheu94 did you find a solution? i have the same problem.

tkelman · 2017-02-15T00:22:38Z

installing pkg-config might help

rickyars · 2017-02-15T00:24:48Z

@tkelman it is installed - that's the weird thing

tkelman · 2017-02-15T00:35:45Z

gist the entire build log and config.log files

zazadi closed this as completed Nov 1, 2016

zazadi reopened this Nov 1, 2016

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ERROR: CoinOptServices #25

ERROR: CoinOptServices #25

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ERROR: CoinOptServices #25

ERROR: CoinOptServices #25

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