Re: [Gmod-ajax] data are not displayed even though they were loaded (JBrowse)

[Anja F. <fri...@ho...>]

Thank you very much for your time and help.
I was afraid something like this will happen when I change it. But as I don't know whether they are stranded or not, I thought its better to mark it as unknown...
I changed all the classes but it still won't display the motifs. Do I have to change it somewhere in addition?

Anja
Date: Tue, 5 Oct 2010 18:31:31 -0700
From: mit...@be...
To: fri...@ho...; gmo...@li...
Subject: Re: [Gmod-ajax] data are not displayed even though they were loaded (JBrowse)



  


    
  
  
    Okay, one of the GFF files that you sent earlier had strand
    information for the motifs.  I didn't notice that your later GFF
    files listed the motifs as being unstranded.

    

    That's why, in the CSS example I sent earlier, the CSS classes were
    all listed with separate "plus-" and "minus-" versions.

    

    If the motifs don't have strand information, then the CSS file
    should have CSS class names without those "plus-" and "minus-"
    prefixes.  For example, in the earlier example CSS file I sent, I
    had this:

    

    =====

    .plus-small_red,

    .plus-small_blue,

    .plus-small_purple,

    .plus-tall_blue,

    .plus-tall_purple,

    .minus-small_red,

    .minus-small_blue,

    .minus-small_purple,

    .minus-tall_blue,

    .minus-tall_purple {

        position: absolute;

        cursor: pointer;

        z-index: 10;

        min-width: 1px;

    }

    

    .plus-small_red, .minus-small_red {

        background-color: #EB2A2A; height: 6px; margin-top: -1px;

    }

    .plus-small_blue, .minus-small_blue {

        background-color: #46A1E0; height: 6px; margin-top: -1px;

    }

    .plus-small_purple, .minus-small_purple {

        background-color: #7322BF; height: 6px; margin-top: -1px;

    }

    .plus-tall_blue, .minus-tall_blue {

        background-color: #46A1E0; height: 10px; margin-top: -3px;

    }

    .plus-tall_purple, .minus-tall_purple {

        background-color: #7322BF; height: 10px; margin-top: -3px;

    }

    =====

    

    

    but if your motifs are unstranded, you could have this instead:

    

    

    =====

    .small_red,

    .small_blue,

    .small_purple,

    .tall_blue,

    .tall_purple {

        position: absolute;

        cursor: pointer;

        z-index: 10;

        min-width: 1px;

    }

    

    .small_red {

        background-color: #EB2A2A; height: 6px; margin-top: -1px;

    }

    .small_blue {

        background-color: #46A1E0; height: 6px; margin-top: -1px;

    }

    .small_purple {

        background-color: #7322BF; height: 6px; margin-top: -1px;

    }

    .tall_blue {

        background-color: #46A1E0; height: 10px; margin-top: -3px;

    }

    .tall_purple {

        background-color: #7322BF; height: 10px; margin-top: -3px;

    }

    =====

    

    

    Or, if your data has both stranded and unstranded features, you
    could include both stranded and unstranded versions of your CSS
    classes.

    

    Mitch

    

    On 10/05/2010 03:39 PM, Anja Friedrich wrote:
    
      
      done

      

      > Date: Tue, 5 Oct 2010 15:37:01 -0700

      > From: mit...@be...

      > To: gmo...@li...;
      fri...@ho...

      > Subject: Re: [Gmod-ajax] data are not displayed even though
      they were loaded (JBrowse)

      > 

      > Can you do this:

      > 

      > cd /var/www

      > tar czf taro-tracks.tar.gz data/tracks

      > 

      > That will create a file named taro-tracks.tar.gz, with your
      generated 

      > data. Then can you email the file to me? That should help me
      figure 

      > out what's going on.

      > 

      > Mitch

      >