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  • BIRCH: Comprehensive bioinfo. system - Support tickets

    Submit | Open tickets | Closed tickets

    [ Ticket #1167 ] osx - ribosome parameters don't work
    Date:
    04/17/12 17:42
    Submitted by:
    B_Fristensky
    Assigned to:
    B_Fristensky
    Category:
    bioLegato
    Priority:
    8
    Ticket group:
    Bug
    Resolution:
    Resolved
    Summary:
    osx - ribosome parameters don't work
    Original submission:
    This problem seems to be specific to OSX.

    The three parameters, "Preserve reading frame", "Reading frames" and "Append number" don't work when set in the
    bioLegato menu.

    First, we need to determine that the do work when running
    the binary at the command line. If they do, then we assume
    it is a problem with the ribosome.item file. It is most likely
    an issue with how OSX parses shell commands. The
    itemmethod is a particualarly complex one.

    Therfore, the most likely solution is to move most of the
    shell code out of the itemmethod and into a shell script.
    Please log in to add comments and receive followups via email.
    Followups
    Comment Date By
    It turned out that when I revised ribosome in August, I forgot to recompile for osx-x86_64 and for linux-intel. That has been done, and the new binaries added to their respective bin directories. 04/18/12 13:48 B_Fristensky
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    Ticket change history
    Field Old value Date By
    status_id Open 04/18/12 13:48 B_Fristensky
    resolution_id Not Resolved 04/18/12 13:48 B_Fristensky
    close_date 12/31/69 19:00 04/18/12 13:48 B_Fristensky
    status_id Pending 04/17/12 17:42 B_Fristensky
    priority 5 04/17/12 17:42 B_Fristensky
    assigned_to unset 04/17/12 17:42 B_Fristensky
    resolution_id Unset 04/17/12 17:42 B_Fristensky

     

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