Seqanswers Leaderboard Ad

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
          Current Approaches to Protein Sequencing
          by seqadmin


          Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...
          04-04-2024, 04:25 PM
        • seqadmin
          Strategies for Sequencing Challenging Samples
          by seqadmin


          Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
          03-22-2024, 06:39 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by seqadmin, Yesterday, 12:08 PM
        0 responses
        11 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 04-10-2024, 10:19 PM
        0 responses
        14 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 04-10-2024, 09:21 AM
        0 responses
        14 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 04-04-2024, 09:00 AM
        0 responses
        43 views
        0 likes
        Last Post seqadmin  
        Working...
        X