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  • Problem with Gbrowse 1.7 old version: it does not recognize the gff3 file well

    Hi,

    Could anyone help me figure out the following problem? Thx a lot in advance!
    I am trying to update the database of a website which was built on the basis of the flat-file Gbrowse version 1.7.

    (1) But after uploading both the gff3 and conf file, I found that the Gbrowse can not recognize some features in the gff3 file.
    For example, as to each gene, it has ID, Name and locus_tag in the 9th column
    AJKJ01000168 GenBank gene 3811 5214 . - 1 ID=C357_22370;Name=murD;locus_tag=C357_22370
    whereas, the Gbrowse will only show its ID.
    I want to show it "Name" on the website, too. But my configure file does not work. =(
    [GENE]
    feature = gene
    glyph = arrow
    fgcolor = red
    linewidth = 2
    height = 6
    description = sub {
    my $feature = shift;
    return $feature->attributes("Name");
    }
    key = Annotated Genes


    Is anything wrong with my codes? ~~~~(T_T)~~~~~~

    (2) In addition, I found that I cannot search a gene with its Name.
    It feels that the only marker for a gene is its ID.
    How can I solve this problem?

    Thank you very much again. I am really a green hand in this area. p_(^o^)-q

    Ying S

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