Seqanswers Leaderboard Ad

Collapse
X
 
  • Filter
  • Time
  • Show
Clear All
new posts
  • hc_2011
    Junior Member
    • Feb 2012
    • 1

    SOAPsnp install problems

    I tried to use SOAPsnp to call SNPs for RNA-seq data. When I used "make all" to install the SOAPsnp, it come out such words:

    g++ -fomit-frame-pointer -O3 -ffast-math -funroll-loops -mmmx -msse -msse2 -msse3 -fmessage-length=0 -c -o call_genotype.o call_genotype.cc
    In file included from call_genotype.cc:1:
    soap_snp.h:12:51: error: boost/iostreams/filtering_streambuf.hpp: No such file or directory
    soap_snp.h:13:36: error: boost/iostreams/copy.hpp: No such file or directory
    soap_snp.h:14:43: error: boost/iostreams/filter/gzip.hpp: No such file or directory
    make: *** [call_genotype.o] Error 1

    I think it maybe have something wrong with the "boost", however I can not find an effective way to fix it,.Can anybody help me to install SOAPsnp? Thank you
  • logicthief
    Member
    • Jan 2012
    • 11

    #2
    I'm not sure whether you have solved your problem, in case you haven't, here's what I did:

    Code:
    wget http://sourceforge.net/projects/boost/files/boost/1.51.0/boost_1_51_0.tar.gz/download
    tar zxvf boost_1_51_0.tar.gz
    export CPLUS_INCLUDE_PATH="absolute_path_to_boost/boost_1_51_0"
    then go to SOAPsnp directory and do 'make all' again. Basically, I just added the boost library pool to the default lib searching path.

    Comment

    • qtl
      Junior Member
      • Oct 2012
      • 1

      #3
      Install the boost-devel package will solve your problem better

      In Fedora,
      sudo yum install boost-devel

      In Ubuntu
      sudo apt-get install libboost1.48-dev

      I was searching answers of this question and met this

      Comment

      • xiangwulu
        Member
        • Apr 2014
        • 18

        #4
        Originally posted by qtl View Post
        In Fedora,
        sudo yum install boost-devel

        In Ubuntu
        sudo apt-get install libboost1.48-dev

        I was searching answers of this question and met this


        This works, thanks.

        Comment

        Latest Articles

        Collapse

        • seqadmin
          New Genomics Tools and Methods Shared at AGBT 2025
          by seqadmin


          This year’s Advances in Genome Biology and Technology (AGBT) General Meeting commemorated the 25th anniversary of the event at its original venue on Marco Island, Florida. While this year’s event didn’t include high-profile musical performances, the industry announcements and cutting-edge research still drew the attention of leading scientists.

          The Headliner
          The biggest announcement was Roche stepping back into the sequencing platform market. In the years since...
          03-03-2025, 01:39 PM
        • seqadmin
          Investigating the Gut Microbiome Through Diet and Spatial Biology
          by seqadmin




          The human gut contains trillions of microorganisms that impact digestion, immune functions, and overall health1. Despite major breakthroughs, we’re only beginning to understand the full extent of the microbiome’s influence on health and disease. Advances in next-generation sequencing and spatial biology have opened new windows into this complex environment, yet many questions remain. This article highlights two recent studies exploring how diet influences microbial...
          02-24-2025, 06:31 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by seqadmin, 03-20-2025, 05:03 AM
        0 responses
        18 views
        0 reactions
        Last Post seqadmin  
        Started by seqadmin, 03-19-2025, 07:27 AM
        0 responses
        24 views
        0 reactions
        Last Post seqadmin  
        Started by seqadmin, 03-18-2025, 12:50 PM
        0 responses
        19 views
        0 reactions
        Last Post seqadmin  
        Started by seqadmin, 03-03-2025, 01:15 PM
        0 responses
        187 views
        0 reactions
        Last Post seqadmin  
        Working...