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  • nightsun
    Junior Member
    • May 2010
    • 2

    #1

    Can't make Maq

    hi
    i am installing maq-0.7.1,after ./configure no problem,when i make,some problems appeared,what should i do?
    root@ubuntu:~# cd /home/glr/biosoftware/maq-0.7.1
    root@ubuntu:/home/glr/biosoftware/maq-0.7.1# ./configure
    checking for a BSD-compatible install... /usr/bin/install -c
    checking whether build environment is sane... yes
    checking for a thread-safe mkdir -p... /bin/mkdir -p
    checking for gawk... gawk
    checking whether make sets $(MAKE)... yes
    checking build system type... i686-pc-linux-gnu
    checking host system type... i686-pc-linux-gnu
    checking for gcc... gcc
    checking for C compiler default output file name... a.out
    checking whether the C compiler works... yes
    checking whether we are cross compiling... no
    checking for suffix of executables...
    checking for suffix of object files... o
    checking whether we are using the GNU C compiler... yes
    checking whether gcc accepts -g... yes
    checking for gcc option to accept ISO C89... none needed
    checking for g++... g++
    checking whether we are using the GNU C++ compiler... yes
    checking whether g++ accepts -g... yes
    checking if gcc accepts -m64... yes
    checking how to run the C preprocessor... gcc -E
    checking for grep that handles long lines and -e... /bin/grep
    checking for egrep... /bin/grep -E
    checking for ANSI C header files... no
    checking for sys/types.h... yes
    checking for sys/stat.h... yes
    checking for stdlib.h... yes
    checking for string.h... yes
    checking for memory.h... yes
    checking for strings.h... yes
    checking for inttypes.h... yes
    checking for stdint.h... yes
    checking for unistd.h... yes
    checking zlib.h usability... yes
    checking zlib.h presence... yes
    checking for zlib.h... yes
    configure: creating ./config.status
    config.status: creating Makefile
    config.status: creating config.h
    config.status: config.h is unchanged
    root@ubuntu:/home/glr/biosoftware/maq-0.7.1# make
    make all-am
    make[1]: 姝e湪杩涘叆鐩綍 `/home/glr/biosoftware/maq-0.7.1'
    g++ -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -o maq main.o const.o seq.o bfa.o read.o fasta2bfa.o fastq2bfq.o merge.o match_aux.o match.o sort_mapping.o assemble.o pileup.o mapcheck.o get_pos.o assopt.o aux_utils.o rbcc.o subsnp.o pair_stat.o indel_soa.o maqmap.o maqmap_conv.o altchr.o submap.o rmdup.o simulate.o genran.o indel_pe.o stdaln.o indel_call.o eland2maq.o csmap2ntmap.o break_pair.o glfgen.o -lm -lz
    /usr/bin/ld.bfd.real: skipping incompatible /usr/lib/gcc/i486-linux-gnu/4.4.3/libstdc++.so when searching for -lstdc++
    /usr/bin/ld.bfd.real: skipping incompatible /usr/lib/gcc/i486-linux-gnu/4.4.3/libstdc++.a when searching for -lstdc++
    /usr/bin/ld.bfd.real: skipping incompatible /usr/lib/gcc/i486-linux-gnu/4.4.3/libstdc++.so when searching for -lstdc++
    /usr/bin/ld.bfd.real: skipping incompatible /usr/lib/gcc/i486-linux-gnu/4.4.3/libstdc++.a when searching for -lstdc++
    /usr/bin/ld.bfd.real: cannot find -lstdc++
    collect2: ld returned 1 exit status
    make[1]: *** [maq] 閿欒 1
    make[1]:姝e湪绂诲紑鐩綍 `/home/glr/biosoftware/maq-0.7.1'
    make: *** [all] 閿欒 2
    root@ubuntu:/home/glr/biosoftware/maq-0.7.1#
  • nilshomer
    Nils Homer
    • Nov 2008
    • 1283

    #2
    Looks like an architecture mismatche problem. Check for similar problems and solutions when installing other software causing the same error ("cannot find -lstdc++")

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