Header Leaderboard Ad

Collapse

Installing bwa in Fedora 10

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Installing bwa in Fedora 10

    Im trying to install BWA in a Fedora 10 64 bit machine
    and I run the following commands:
    Code:
    tar xvjf bwa-0.6.1.tar.bz2
    make
    I get the following error:
    Code:
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   QSufSort.c -o QSufSort.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bwt_gen.c -o bwt_gen.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   utils.c -o utils.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bwt.c -o bwt.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bwtio.c -o bwtio.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bwtaln.c -o bwtaln.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bwtgap.c -o bwtgap.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   is.c -o is.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bntseq.c -o bntseq.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bwtmisc.c -o bwtmisc.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bwtindex.c -o bwtindex.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   ksw.c -o ksw.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   stdaln.c -o stdaln.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   simple_dp.c -o simple_dp.o
    gcc -c -g -Wall -O2 -DHAVE_PTHREAD   bwaseqio.c -o bwaseqio.o
    In file included from bwtaln.h:6,
                     from bwaseqio.c:4:
    bwt.h:61: error: expected specifier-qualifier-list before ‘size_t’
    make: *** [bwaseqio.o] Error 1
    Any clues?

  • #2
    Check this out : http://stackoverflow.com/questions/2...-c-header-file

    Maybe you need to include this line:
    #include <stddef.h>

    Comment


    • #3
      In which file should I make this change.

      Comment


      • #4
        I changed the header in the file bwaseqio.c and it worked! Thanks

        Comment

        Latest Articles

        Collapse

        • seqadmin
          Improved Targeted Sequencing: A Comprehensive Guide to Amplicon Sequencing
          by seqadmin



          Amplicon sequencing is a targeted approach that allows researchers to investigate specific regions of the genome. This technique is routinely used in applications such as variant identification, clinical research, and infectious disease surveillance. The amplicon sequencing process begins by designing primers that flank the regions of interest. The DNA sequences are then amplified through PCR (typically multiplex PCR) to produce amplicons complementary to the targets. RNA targets...
          03-21-2023, 01:49 PM
        • seqadmin
          Targeted Sequencing: Choosing Between Hybridization Capture and Amplicon Sequencing
          by seqadmin




          Targeted sequencing is an effective way to sequence and analyze specific genomic regions of interest. This method enables researchers to focus their efforts on their desired targets, as opposed to other methods like whole genome sequencing that involve the sequencing of total DNA. Utilizing targeted sequencing is an attractive option for many researchers because it is often faster, more cost-effective, and only generates applicable data. While there are many approaches...
          03-10-2023, 05:31 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by seqadmin, Yesterday, 01:40 PM
        0 responses
        6 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 03-29-2023, 11:44 AM
        0 responses
        12 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 03-24-2023, 02:45 PM
        0 responses
        20 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 03-22-2023, 12:26 PM
        0 responses
        28 views
        0 likes
        Last Post seqadmin  
        Working...
        X