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  • rzeng
    Member
    • Aug 2013
    • 19

    #1

    BWA installation failed after "make" command in Linux

    I am the first to install BWA and never use this software by commands of Linux.When I try to install BWA under bwa.0.7.5a, after I typed "make" it showed as follows:

    gcc -g -Wall -O2 -DHAVE_PTHREAD -DUSE_MALLOC_WRAPPERS QSufSort.o bwt_gen.o bwase.o bwaseqio.o bwtgap.o bwtaln.o bamlite.o is.o bwtindex.o bwape.o kopen.o pemerge.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o fastmap.o bwtsw2_pair.o main.o -o bwa -L. -lbwa -lm -lz -lpthread
    ld: can't open output file for writing: bwa, errno=21
    collect2: ld returned 1 exit status
    make: *** [bwa] Error 1

    I have installed xcode 3.2.6 on my mac but do not know what's going on there. Anyone can answer my question?

    Very appreciate!
  • lindenb
    Senior Member
    • Apr 2010
    • 143

    #2
    cross posted on biostar: http://www.biostars.org/p/80556

    Comment

    • GenoMax
      Senior Member
      • Feb 2008
      • 7142

      #3
      Check to make sure that the account you are running this from has write permissions in this directory hierarchy.

      Other thing to check (as posted by someone on biostars) is to see if you already have a file/directory named bwa.

      Comment

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