on SOAP program

[Pol8]

Hi everyone,

I just typed 'make' to install SOAP, but I got this error.

main.c.text.startup+0xff): undefined reference to `call_pregraph_sparse'
collect2: error: ld returned 1 exit status
make: *** [SOAPdenovo-63mer] Error 1


Any help?
Thanks!

[Wallysb01]

Just get the binaries instead of the source code

[chuckcode]

add includes

On my ubuntu system pregraph_sparse.cpp was failing to compile because the includes for getopt and usleep were missing. I added them to the SOAPdenovo2-src-r240/sparsePregraph/inc/stdinc.h file so they would get included other places if needed as well and then compilation finished fine for me.

Specifically in file SOAPdenovo2-src-r240/sparsePregraph/inc/stdinc.h I have:
...
#include <pthread.h>
#include <getopt.h> /* added to find getopt functions */
#include <unistd.h> /* added to find usleep, may be different on your system */
using namespace std;

Probably too late to help original post but maybe help other folks in the future as google points to this post.

[caiosuz]

Thanks for the tip chuckcode.
It worked perfectly!