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  • fastQC

    Hi,
    i am trying to test my data quality by fastQC.
    i have PE data.
    When i execute this line:
    ./fastqc file.fastq

    i am getting this warning:
    ...........
    Approx 100% complete for file.fastq
    Analysis complete for file.fastq
    (.:922): Gtk-WARNING **: cannot open display:

    and i am getting a corrupt zip file:
    -rw-r--r--. 1 root root 6924 Feb 1 06:26 i-a_file.fastq.zip

    Can anyone help??

    B.R
    pap

  • #2
    It's trying to launch the graphical interface to FastQC. Try specifying --outdir and setting an output directory, it should just write the files into there without launching the GUI.

    Perhaps you are su'd into the root account? I wouldn't generally advise running any application as the root user by the way.
    Last edited by Bukowski; 02-02-2012, 08:21 AM.

    Comment


    • #3
      i just had to upgrade my java to 1.6
      Thanks!

      Comment

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