[Iplant-api-dev] Error building SPA on stampede

[Rion Dooley]

You have an older version of the gcc compilers installed by default. You need to updated them to at least 4.7 to get support for the c++11 option. Once you do that, you’ll find that boost isn’t in your path. You need the 1.51 version. Luckily Robert McLay is awesome, so lmod will solve all this for you. The following commands worked to build it successfully for me on Stampede in my $WORK directory.


$ cdw
$ wget -O sfaspa-0.2.0.tar.gz http://sourceforge.net/projects/spa-assembler/files/SFA-SPA%20source%20%2864%20bit%20linux%29/sfaspa-0.2.0.tar.gz/download
$ tar xzf sfaspa-0.2.0.tar.gz
$ cd sfaspa-0.2.0
$ module load intel/14.0.1.106
$ module load boost/1.51.0
$ export LIBRARY_PATH=/opt/apps/gcc4_7/boost/1.51.0/lib
$ export CPATH=/opt/apps/gcc4_7/boost/1.51.0/include

—
Rion

On Feb 27, 2015, at 3:43 PM, Youens-Clark, Charles Kenneth - (kyclark) <kyclark at email.arizona.edu<mailto:kyclark at email.arizona.edu>> wrote:

I loaded no modules.  In my $WORK/src/sfaspa-0.2.0, I ran the “install.sh” script and got this.

Ken

On Feb 27, 2015, at 1:34 PM, Rion Dooley <dooley at tacc.utexas.edu<mailto:dooley at tacc.utexas.edu>> wrote:

What compiler are you using? Did you module load?

--
Rion

----- Reply message -----
From: "Youens-Clark, Charles Kenneth - (kyclark)" <kyclark at email.arizona.edu<mailto:kyclark at email.arizona.edu>>
To: "Rion Dooley" <dooley at tacc.utexas.edu<mailto:dooley at tacc.utexas.edu>>
Cc: "Discussion of iPlant API development" <iplant-api-dev at iplantcollaborative.org<mailto:iplant-api-dev at iplantcollaborative.org>>
Subject: [Iplant-api-dev] Error building SPA on stampede
Date: Fri, Feb 27, 2015 2:59 PM

While trying to compile SFA-SPA (http://sourceforge.net/projects/spa-assembler/) on stampede (trying to make an app for this), I get the following error:

Installing SPA ...
rm -f /home1/03137/kyclark/src/sfaspa-0.2.0/bin/* *.o *core
g++ -std=c++11 -Wall -Wno-deprecated -fopenmp -I/home1/03137/kyclark/src/sfaspa-0.2.0/3rd/seqan -I/home1/03137/kyclark/src/sfaspa-0.2.0/3rd/libdivsufsort-2.0.1/build/include -I/include -c param.cpp
cc1plus: error: unrecognized command line option "-std=c++11"
make: *** [param.o] Error 1

I’m stumped.

Ken

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