You are here

OpenMx Fails to install in Ubuntu 16.04

5 posts / 0 new
Last post
rabil's picture
Offline
Joined: 01/14/2010 - 16:47
OpenMx Fails to install in Ubuntu 16.04

I'm running Ubuntu 16.04. I get this message:

WARNING: Failed to download libnpsol.a from http://openmx.psyc.virginia.edu/packages/npsol/linux/x86_64/gcc5.4/libnpsol.a
** libs

Here are the details:

rick@rick-CT14:~$ sudo R

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

Natural language support but running in an English locale

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

[Previously saved workspace restored]

> source('http://openmx.psyc.virginia.edu/getOpenMx.R')
You are now installing the latest version of OpenMx.Installing package into ‘/home/rick/R/x86_64-pc-linux-gnu-library/3.3’
(as ‘lib’ is unspecified)
trying URL 'http://openmx.psyc.virginia.edu/OpenMx2/src/contrib/OpenMx_2.6.9.tar.gz'

Content type 'application/x-gzip' length 4612150 bytes (4.4 MB)

downloaded 4.4 MB

  • installing source package ‘OpenMx’ ...
    Change default C/C++ compiler and default compile flags by editing ~/.R/Makevars
    WARNING: Failed to download libnpsol.a from http://openmx.psyc.virginia.edu/packages/npsol/linux/x86_64/gcc5.4/libnpsol.a
    ** libs
    g++ -std=c++11 -I/usr/share/R/include -DNDEBUG -I"/home/rick/R/x86_64-pc-linux-gnu-library/3.3/Rcpp/include" -I"/home/rick/R/x86_64-pc-linux-gnu-library/3.3/RcppEigen/include" -I"/home/rick/R/x86_64-pc-linux-gnu-library/3.3/StanHeaders/include" -I"/home/rick/R/x86_64-pc-linux-gnu-library/3.3/BH/include" -I"/home/rick/R/x86_64-pc-linux-gnu-library/3.3/rpf/include" -fopenmp -Wall -Wextra -Wno-unknown-pragmas -Wno-unused-parameter -Wvla -Wno-unused-local-typedefs -fdiagnostics-color=auto -fpic -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Compute.cpp -o Compute.o
    In file included from /home/rick/R/x86_64-pc-linux-gnu-library/3.3/RcppEigen/include/Eigen/Core:276:0,
    from omxMatrix.h:38,
    from omxState.h:52,
    from glue.h:23,
    from Compute.cpp:23:
    /home/rick/R/x86_64-pc-linux-gnu-library/3.3/RcppEigen/include/Eigen/src/Core/Functors.h:973:28: warning: ‘template class std::binder2nd’ is deprecated [-Wdeprecated-declarations]
    struct functor_traits >
    ^
    In file included from /usr/include/c++/5/bits/stl_function.h:1128:0,
    from /usr/include/c++/5/string:48,
    from /usr/include/c++/5/random:40,
    from /usr/include/c++/5/bits/stl_algo.h:66,
    from /usr/include/c++/5/algorithm:62,
    from Compute.cpp:17:
    /usr/include/c++/5/backward/binders.h:143:11: note: declared here
    class binder2nd
    ^
    In file included from /home/rick/R/x86_64-pc-linux-gnu-library/3.3/RcppEigen/include/Eigen/Core:276:0,
    from omxMatrix.h:38,
    from omxState.h:52,
    from glue.h:23,
    from Compute.cpp:23:
    /home/rick/R/x86_64-pc-linux-gnu-library/3.3/RcppEigen/include/Eigen/src/Core/Functors.h:977:28: warning: ‘template class std::binder1st’ is deprecated [-Wdeprecated-declarations]
    struct functor_traits >
    ^
    In file included from /usr/include/c++/5/bits/stl_function.h:1128:0,
    from /usr/include/c++/5/string:48,
    from /usr/include/c++/5/random:40,
    from /usr/include/c++/5/bits/stl_algo.h:66,
    from /usr/include/c++/5/algorithm:62,
    from Compute.cpp:17:
    /usr/include/c++/5/backward/binders.h:108:11: note: declared here
    class binder1st
jpritikin's picture
Offline
Joined: 05/24/2012 - 00:35
libnpsol

Yeah, that's a shortcoming in the ./configure script that shipped with 2.6.9.

Try replacing it with this one, https://raw.githubusercontent.com/OpenMx/OpenMx/master/configure

Does it work?

rabil's picture
Offline
Joined: 01/14/2010 - 16:47
I could try but I don't know

I could try but I don't know how to do it. Why would they use a configure script that doesn't work?

jpritikin's picture
Offline
Joined: 05/24/2012 - 00:35
configure

It's our configure script. We have a better version in the upcoming release. Do you need this urgently or can you wait a few weeks? We're planning to do a release soon.

AdminRobK's picture
Offline
Joined: 01/24/2014 - 12:15
CRAN?

You could try installing the package from CRAN, since the CRAN build doesn't include NPSOL.

Log in or register to post comments