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  • Tophat installation on Mac G5

    I have been trying to compile tophat from source on a Mac G5 running OSX 10.5.8.

    Code:
    mu-166163:tophat-1.3.2 $ make
    make  all-recursive
    Making all in src
    g++ -Wall -Wno-strict-aliasing -m64 -O3  -DNDEBUG -I/Users/xxxx/Desktop/software/include -I./SeqAn-1.2 -Wall -Wno-strict-aliasing -m64 -O3  -DNDEBUG -I/Users/xxxx/Desktop/software/include  -L/usr/lib -o prep_reads -L/Users/xxxx/Desktop/software/lib prep_reads.o ../src/libtophat.a -lbam -lz -lz 
    ld warning: in /Users/xxxx/Desktop/software/lib/libbam.a, file is not of required architecture
    Undefined symbols:
      "_bam_calend", referenced from:
          GBamRecord::set_cigar(char const*)in libtophat.a(common.o)
      "_bam_cigar2qlen", referenced from:
          GBamRecord::add_sequence(char const*, int)in libtophat.a(common.o)
      "_bam_nt16_table", referenced from:
          _bam_nt16_table$non_lazy_ptr in libtophat.a(common.o)
    ld: symbol(s) not found
    collect2: ld returned 1 exit status
    make[2]: *** [prep_reads] Error 1
    make[1]: *** [all-recursive] Error 1
    make: *** [all] Error 2
    Anyone know what I need to fix this?

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