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  • Gorson117
    Junior Member
    • Oct 2016
    • 1

    Cufflinks---no response after run

    Hi all,

    I am suffering a very strange problem in running Cufflinks and hope you can help to solve this:

    1. I had run Cufflinks for a lot of times before. But recently I found it did not generate any outputs and did not report any errors. When I typed “top”, both the CPU and Memory were 0 and the status was S (sleep);

    2. When I typed “cufflinks”, it returned the details of parameters as before;

    3. However, if I typed “cufflinks” with an incorrect path to the SAM file, previously it would report an error like this “You are using Cufflinks v2.2.1, which is the most recent release. open: No such file or directory File a doesn't appear to be a valid BAM file, trying SAM... Error: cannot open alignment file a for reading”. But this time, there was no error reported.

    Does anyone can help me on this? Thanks so much!

    Best,

    Gorson
  • RasmusKriis
    Junior Member
    • Feb 2016
    • 3

    #2
    Hi,

    I have exactly the same problem, are there someone who have any idea what the problem could be?

    Rasmus

    Comment

    • Marlene Quintas
      Junior Member
      • Aug 2015
      • 1

      #3
      Hi,

      I'm also experiencing the same problem. Did any of you found a solution for it?
      I'm not sure what should I do.

      Thanks,
      Marlene

      Comment

      • RasmusKriis
        Junior Member
        • Feb 2016
        • 3

        #4
        Hi,

        I did fix this problem, however I am not sure how or what the problem was. First, I tried to run Cufflinks on a different computer, which had no problems running. After that I reinstalled the OS on my computer and then the problem disappeared. I don´t know if this can help you, I hope so.

        Rasmus
        Last edited by RasmusKriis; 11-29-2016, 03:23 PM.

        Comment

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