Header Leaderboard Ad

Collapse

BFAST - Help

Collapse

Announcement

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

  • #16
    Originally posted by Krosh View Post
    Hi,
    I can't install bfast in Ubuntu. Thanks for any help.
    Same answer, install the necessary packages listed above. I am adding this to the new BFAST FAQ: https://sourceforge.net/apps/mediawi....php?title=FAQ

    Comment


    • #17
      Thank you!

      Comment


      • #18
        Hi,

        I am also having some problems building bfast (0.7.0a) on mac osx 10.8.5 with xcode version 3.2.6.

        I am able to run the autogen.sh and ./configure successfully, but I get the following error during the make:

        Undefined symbols for architecture x86_64:
        "_AlignNTSpaceFillInCell", referenced from:
        _AlignNTSpaceGappedBounded in AlignNTSpace.o
        _AlignNTSpaceGappedConstrained in AlignNTSpace.o
        "_ScoringMatrixGetColorScore", referenced from:
        _AlignExact in Align.o
        _AlignColorSpaceUngappedGetBest in AlignColorSpace.o
        _AlignColorSpaceFillInCell in AlignColorSpace.o
        _AlignColorSpaceGappedConstrained in AlignColorSpace.o
        "_ScoringMatrixGetNTScore", referenced from:
        _AlignExact in Align.o
        _AlignNTSpaceUngapped in AlignNTSpace.o
        _AlignNTSpaceGappedConstrained in AlignNTSpace.o
        _AlignColorSpaceUngappedGetBest in AlignColorSpace.o
        _AlignColorSpaceFillInCell in AlignColorSpace.o
        _AlignColorSpaceGappedConstrained in AlignColorSpace.o
        "_ToUpper", referenced from:
        _AlignedReadConvertPrintAlignedEntryToCIGAR in AlignedReadConvert.o
        _RGBinaryRead in RGBinary.o
        _RGMatchCheck in RGMatch.o
        _AlignExact in Align.o
        (maybe you meant: _ToUpperRead)
        ld: symbol(s) not found for architecture x86_64
        clang: error: linker command failed with exit code 1 (use -v to see invocation)
        make[2]: *** [bfast] Error 1
        make[1]: *** [all-recursive] Error 1
        make: *** [all] Error 2

        Searching online leads me to believe that it is a problem in the linking stage, but I don't know how to fix it myself. If anyone has any tips for me, or if I need to post more information, then please let me know.

        Comment

        Latest Articles

        Collapse

        • seqadmin
          A Brief Overview and Common Challenges in Single-cell Sequencing Analysis
          by seqadmin


          ​​​​​​The introduction of single-cell sequencing has advanced the ability to study cell-to-cell heterogeneity. Its use has improved our understanding of somatic mutations1, cell lineages2, cellular diversity and regulation3, and development in multicellular organisms4. Single-cell sequencing encompasses hundreds of techniques with different approaches to studying the genomes, transcriptomes, epigenomes, and other omics of individual cells. The analysis of single-cell sequencing data i...

          01-24-2023, 01:19 PM
        • seqadmin
          Introduction to Single-Cell Sequencing
          by seqadmin
          Single-cell sequencing is a technique used to investigate the genome, transcriptome, epigenome, and other omics of individual cells using high-throughput sequencing. This technology has provided many scientific breakthroughs and continues to be applied across many fields, including microbiology, oncology, immunology, neurobiology, precision medicine, and stem cell research.

          The advancement of single-cell sequencing began in 2009 when Tang et al. investigated the single-cell transcriptomes
          ...
          01-09-2023, 03:10 PM

        ad_right_rmr

        Collapse
        Working...
        X