Announcement

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

  • GapFiller compiling problem

    Hey!

    For the last couple of days I've been trying to install GapFiller on linux. Sadly, i failed several times. After I ./configure; make i end up with the following error:

    -------------------------------------------------------------------------------------
    /usr/bin/ld: samtools/GapFiller-bam_import.o: undefined reference to symbol 'gzdopen'
    //usr/local/lib/libz.so.1: error adding symbols: DSO missing from command line
    collect2: error: ld returned 1 exit status
    make[1]: *** [GapFiller] Error 1
    make[1]: Leaving directory `$HOME/ngs/gapfiller-2.1.1/src'
    make: *** [all-recursive] Error 1
    -------------------------------------------------------------------------------------

    Has anyone encountered this error before? I've read quite abit about it, but couldnt find an effective solution. I've compiled a bunch of other softwares and they all worked fine.

    Any input would be appreciated!
    Best,
    Last edited by exo; 11-04-2014, 06:01 AM.

  • #2
    Can you check the Makefile and see if you can find a line that says LIBS? If there is "-lz" in that line, move it to the end of that line.

    One other thing to try would be (if -lz is missing):
    Code:
    $ ./configure LIBS="-lz"

    Comment


    • #3
      Wow ok, that worked thank you! Apparently -lz was missing from the Makefile adding your suggestion while running the "./configure" command fixed it!

      Thank you!

      Comment

      Latest Articles

      Collapse

      • seqadmin
        Multiomics Techniques Advancing Disease Research
        by seqadmin


        New and advanced multiomics tools and technologies have opened new avenues of research and markedly enhanced various disciplines such as disease research and precision medicine1. The practice of merging diverse data from various ‘omes increasingly provides a more holistic understanding of biological systems. As Maddison Masaeli, Co-Founder and CEO at Deepcell, aptly noted, “You can't explain biology in its complex form with one modality.”

        A major leap in the field has
        ...
        02-08-2024, 06:33 AM
      • seqadmin
        The 3D Genome: New Technologies and Emerging Insights
        by seqadmin


        The study of three-dimensional (3D) genomics explores the spatial structure of genomes and their role in processes like gene expression and DNA replication. By employing innovative technologies, researchers can study these arrangements to discover their role in various biological processes. Scientists continue to find new ways in which the organization of DNA is involved in processes like development1 and disease2.

        Basic Organization and Structure
        Understanding...
        01-22-2024, 03:25 PM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by seqadmin, Today, 08:52 AM
      0 responses
      10 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, Yesterday, 08:57 AM
      0 responses
      12 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 02-14-2024, 09:19 AM
      0 responses
      48 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 02-12-2024, 03:37 PM
      0 responses
      422 views
      0 likes
      Last Post seqadmin  
      Working...
      X