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  • CATCH - Support tickets

    Submit | Open tickets | Closed tickets

    [ Ticket #564 ] Import from varstep wiggle format
    Date:
    12/10/08 07:07
    Submitted by:
    glyn_dk
    Assigned to:
    unset
    Category:
    input related bugs
    Priority:
    5
    Ticket group:
    reproducible
    Resolution:
    Resolved
    Summary:
    Import from varstep wiggle format
    Original submission:
    (running: CATCH3 svn rev 205)

    1 Open file handler 'import files'
    2 Add a varstep signal file (not attached: file size too big)
    3 Add a position file with positions only for chr1 (peaktrack_example_chr1.bed)
    4 Click 'convert and add to CATCH'

    There is no change in visual display.
    There is no console output.
    There is approx 100% cpu usage.

    I waited for a while and then killed it.
    Either the processing is taking very long, or there must be an
    infinite loop somewhere...
    Please log in to add comments and receive followups via email.
    Followups
    Comment Date By
    From Berry:
    Alright, so the bug wasn't in reading var-files, it's caused by the first line ("track type=wiggle_0 ...").
    When the line didn't match any of the existing patterns, I didn't clear it, so rather than reading a new line I'd keep on using the same line. That's fixed now, and so are the places where I'd set currentline to an empty string rather than to null.
    01/05/09 09:31 glyn_dk
    No results for "Dependent on ticket"
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    No other tickets are dependent on this ticket
    Ticket change history
    Field Old value Date By
    status_id Unset 01/05/09 09:31 glyn_dk
    resolution_id Unset 01/05/09 09:31 glyn_dk
    close_date 12/31/69 19:00 01/05/09 09:31 glyn_dk

     

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