[Primeusers] problems compiling primeGSR on Ubuntu Lucid Lynx

[Tiwari, Bela]

Hello,

I have been trying to compile primeGSR on Ubuntu LucidLynx (64 bit). I'm using g++ as the compiler (4.4.3)  and have all the dependencies listed on the website installed.  I ran into some problems that I think I managed to solve, but have stalled out at the latest one. I hope you can help.

The issues I think I solved:

Beep.cc  -  the call to std::transform at the end of this file meant that I had to add this line to top the top of the file:
#include <algorithm>

BranchSwapping.cc - the exit() call required the inclusion of the following at the top of the file:
#include <cstdlib>

Now, I'm stuck on GammaMap.cc. I get the following error when compiling:

####################
g++ -O3 -DNDEBUG -DPERTURBED_NODE -funroll-loops -DFIX_2   -Wreorder -Wall   -c -o GammaMap.o GammaMap.cc
GammaMap.cc: In member function ‘void beep::GammaMap::removeFromSet(beep::Node*, beep::Node*)’:
GammaMap.cc:1206: error: no matching function for call to ‘find(std::_Deque_iterator<beep::Node*, beep::Node*&, beep::Node**>, std::_Deque_iterator<beep::Node*, beep::Node*&, beep::Node**>, beep::Node*&)’
make: *** [GammaMap.o] Error 1
#####################

I've tried to see if missing include lines are the issue here also, but have failed to figure out the probelm.

Can you advise on how to fix the above error?


thanks,

Bela


*************************
Dr. Bela Tiwari
Lead Bioinformatician
NERC Environmental
Bioinformatics Centre
http://nebc.nerc.ac.uk
tel: 01491 69 2705

Centre for Ecology and Hydrology
Maclean Bldg, Benson Lane
Crowmarsh Gifford
Wallingford, England
OX10 8BB
*************************

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