Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Breakdancer installation problem or error

    Dear SEQanswer users

    Hope you are able to help me with the installation of breakdancer.

    I've downloaded version 1.4.5. and used the installation instructions in the INSTALL.md file for installing breakdancer on our linux server/computer

    The following commands have been runned after unpacking to my destination folder.

    cd /data/mark/tools/breakdancer
    mkdir build
    cd build

    cmake .. -DCMAKE_BUILD_TYPE=release -DCMAKE_INSTALL_PREFIX=/usr/local

    Then I get the following:

    -- The C compiler identification is GNU 4.1.2
    -- The CXX compiler identification is GNU 4.1.2
    -- Check for working C compiler: /usr/bin/cc
    -- Check for working C compiler: /usr/bin/cc -- works
    -- Detecting C compiler ABI info
    -- Detecting C compiler ABI info - done
    -- Detecting C compile features
    -- Detecting C compile features - done
    -- Check for working CXX compiler: /usr/bin/c++
    -- Check for working CXX compiler: /usr/bin/c++ -- works
    -- Detecting CXX compiler ABI info
    -- Detecting CXX compiler ABI info - done
    -- Detecting CXX compile features
    -- Detecting CXX compile features - done
    Score floating point type: double
    -- Looking for include file pthread.h
    -- Looking for include file pthread.h - found
    -- Looking for pthread_create
    -- Looking for pthread_create - not found
    -- Looking for pthread_create in pthreads
    -- Looking for pthread_create in pthreads - not found
    -- Looking for pthread_create in pthread
    -- Looking for pthread_create in pthread - found
    -- Found Threads: TRUE
    -- Performing Test CXX11_FLAG0
    -- Performing Test CXX11_FLAG0 - Failed
    -- Performing Test CXX11_FLAG1
    -- Performing Test CXX11_FLAG1 - Failed
    -- Performing Test CXX11_FLAG2
    -- Performing Test CXX11_FLAG2 - Failed
    -- Performing Test CXX11_FLAG3
    -- Performing Test CXX11_FLAG3 - Failed
    -- Performing Test CXX11_STDLIB_FLAG0
    -- Performing Test CXX11_STDLIB_FLAG0 - Failed
    -- Performing Test CXX11_STDLIB_FLAG1
    -- Performing Test CXX11_STDLIB_FLAG1 - Failed
    -- Performing Test CXX11_STDLIB_FLAG2
    -- Performing Test CXX11_STDLIB_FLAG2 - Failed
    CMake Error at CMakeLists.txt:51 (message):
    Failed to find C++11 support with compiler:

    /usr/bin/c++ (GNU 4.1.2).


    -- Configuring incomplete, errors occurred!
    See also "/data/mark/tools/breakdancer/build/CMakeFiles/CMakeOutput.log".
    See also "/data/mark/tools/breakdancer/build/CMakeFiles/CMakeError.log".

    Anybody know how to solve this problem?

    best regards and thanks

    Mark

  • #2
    You appear to be using an "aged" version of the GNU compiler. Any chance of using a newer one?

    Comment


    • #3
      Reply

      Hi GenoMax

      Thanks a lot for your answer. I am new to compilers. The server is using an "older" linux system CENTOS 5 and is apart from research also used for clinical computations. My question is therefore does update of the compiler also require update of the linux system?

      best regards

      Mark

      Comment


      • #4
        It may be possible to update the compiler independent of the OS but you should ask your system administrators about that possibility. While you are at it also ask them to compile this software for you :-)

        Comment

        Latest Articles

        Collapse

        • 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
        • seqadmin
          Techniques and Challenges in Conservation Genomics
          by seqadmin



          The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

          Avian Conservation
          Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
          03-08-2024, 10:41 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by seqadmin, 03-27-2024, 06:37 PM
        0 responses
        13 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 03-27-2024, 06:07 PM
        0 responses
        12 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 03-22-2024, 10:03 AM
        0 responses
        53 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 03-21-2024, 07:32 AM
        0 responses
        69 views
        0 likes
        Last Post seqadmin  
        Working...
        X