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  • on SOAP program

    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!

  • #2
    Just get the binaries instead of the source code

    Comment


    • #3
      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.

      Comment


      • #4
        Thanks for the tip chuckcode.
        It worked perfectly!

        Comment

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