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

[Matthew Vaughn]

I’d guess that flag is not supported under the default system GCC which is 

gcc -v
Using built-in specs.
Target: x86_64-redhat-linux
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-languages=c,c++,objc,obj-c++,java,fortran,ada --enable-java-awt=gtk --disable-dssi --with-java-home=/usr/lib/jvm/java-1.5.0-gcj-1.5.0.0/jre --enable-libgcj-multifile --enable-java-maintainer-mode --with-ecj-jar=/usr/share/java/eclipse-ecj.jar --disable-libjava-multilib --with-ppl --with-cloog --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
Thread model: posix
gcc version 4.4.7 20120313 (Red Hat 4.4.7-11) (GCC) 

You have the option to swap to more recent releases of that compiler via the modules system: gcc/4.4.6, gcc/4.6.3, gcc/4.7.1, and you would do so via a command like module load "module load gcc/4.7.1"

I assume you are building an Agave app. This will mean that you will need at least

purge
load TACC
module load gcc/4.7.1

in your list of custom modules in the app description.

Cheers,

Matt

> On Feb 27, 2015, at 2:43 PM, Youens-Clark, Charles Kenneth - (kyclark) <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> wrote:
>> 
>> What compiler are you using? Did you module load?
>> 
>> --
>> Rion
>> 
>> ----- Reply message -----
>> From: "Youens-Clark, Charles Kenneth - (kyclark)" <kyclark at email.arizona.edu>
>> To: "Rion Dooley" <dooley at tacc.utexas.edu>
>> Cc: "Discussion of iPlant API development" <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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