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Old 09-04-2013, 02:26 PM   #1
rzeng
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Default 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!
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Old 09-04-2013, 02:53 PM   #2
lindenb
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cross posted on biostar: http://www.biostars.org/p/80556
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Old 09-05-2013, 03:04 AM   #3
GenoMax
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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.
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