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  • BIRCH: Comprehensive bioinfo. system - Support tickets

    Submit | Open tickets | Closed tickets

    [ Ticket #1188 ] SaveAs ignores selection and saves all sequences
    09/17/13 13:10
    Submitted by:
    Assigned to:
    Ticket group:
    SaveAs ignores selection and saves all sequences
    Original submission:
    copy the .gen files from $birch/tutorials/bioLegato/sequence
    to the current directory


    read in PBI101TD.gen and X5331.gen
    select X52331 in name pane
    File --> SaveAs (GenBank) X52331.bldna.gen

    This file will contain the GenBank entries for both files,
    despite the fact that only X52331 was selected.

    read in PEACAB15.gen
    select PEACAB15 in name pane
    file --> SaveAs (GenBank) PEACAB15.bldna.gen
    This file will contain all three GenBank entries

    select PEACAB15
    File --> SaveAs (fasta) PEACAB15.bldna.fsa
    This file saves all three sequences in fasta format

    read in pBSGUS.wrp (a fasta file)
    select pBSGUS in name pane
    File --> SaveAs (GenBank) pBSGUS.bldna.gen
    This file contains all four sequences in GenBank format.
    since pBSGUS has no GenBank annotation, its annotation
    is generated, correctly by Biolegato.

    It appears that there is a bug in SaveAs that ignores the
    selection and just saves all sequences.
    Please log in to add comments and receive followups via email.
    Comment Date By
    It turns out that this is a feature, not a bug. Save As saves all sequences, and Save Selection saves the selection.

    To alleviate this confusion, we will do the following:

    1. The Save As menu will be changed to say "Save ALL As".
    2. The Save Selection menu will be changed to "Save SELECTION As". So far, the latter change has been made for bldna, but it still needs to be done for all menus.
    09/19/13 16:12 B_Fristensky
    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 Open 03/08/15 17:04 B_Fristensky
    resolution_id Not Resolved 03/08/15 17:04 B_Fristensky
    close_date 12/31/69 19:00 03/08/15 17:04 B_Fristensky
    status_id Pending 09/17/13 13:10 B_Fristensky
    assigned_to unset 09/17/13 13:10 B_Fristensky
    resolution_id Unset 09/17/13 13:10 B_Fristensky


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