in reply to Question about WWW::Mechanize::Firefox

I have been trying to write a code for my project wherein i need to go to a website search for sequences related to mouse strains and save the data on resulting page in a text file.Earlier i was trying to use Mechanize but then after reading I realized it is not good with javascripts. So i am using WWW::Mechanize::Firefox.

Well, there is more than one INPUT TYPE=Button with a value of ">>"

A better idea would be to match against onClick attribute

or complain to whomever programmed that page to add ID's or name's to each button, they have a contact form

or use some bioperl module to access that page, because data appears available for download and http://www.bioperl.org/wiki/Gbrowse says it uses Gbrowse, surely there must be an interface for scraping Gbrowse already :)

  • Comment on Re: Question about WWW::Mechanize::Firefox

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Re^2: Question about WWW::Mechanize::Firefox
by ssj262 (Initiate) on Nov 12, 2012 at 11:30 UTC

    Thank you for your reply. I checked and first part of the code is working. The problem is with the code below.

    $moz->select($variation,$varvalue);

$moz->select($func_class,$funcvalue);

$moz->set_fields(
        geneSymname => 'chrnb2'
    );

$moz->select($output,$outformat);

$moz->submit( $form_name1 );

    [download]

    For the first part I can see strains being added to the box. But for multiple select, I don't see any action happening on the webpage.

[reply]
[d/l]
      What does that mean?
[reply]

        There two "<select multiple" code blocks in the page, and the code above is for them. The code in the page source for those blocks is below: (In this one, I want to select SNP)

         <SELECT MULTIPLE="multiple" NAME="polymorphismType" SIZE="5">
         <OPTION value="" selected="selected">ANY</OPTION>
            <OPTION VALUE='1878510'>SNP</OPTION>
<OPTION VALUE='1878511'>IN-DEL</OPTION>
<OPTION VALUE='1878512'>Named</OPTION>
<OPTION VALUE='1878513'>Mixed</OPTION>
<OPTION VALUE='1878514'>MNP</OPTION>

          </SELECT>

        [download]

        And in the next one, I want to select "coding-non synonymous"

         <SELECT MULTIPLE="multiple" SIZE="5" NAME="functionClass">
            <OPTION value="" selected="selected">ANY</OPTION>
         <OPTION VALUE='1878486'>Coding-NonSynonymous</OPTION>
<OPTION VALUE='1878487'>Coding-Synonymous</OPTION>
<OPTION VALUE='1878489'>Intron</OPTION>
<OPTION VALUE='1878490'>Locus-Region</OPTION>
<OPTION VALUE='1878493'>mRNA-UTR</OPTION>
<OPTION VALUE='1878494'>Splice-Site</OPTION>

          </SELECT>

        [download]

        So the code for the making the selections is written below, but I don't know if it is right or not

        $variation='polymorphismType';
$varvalue=("1878510");
$func_class='functionClass';
$funcvalue='1878486';

$moz->select($variation,$varvalue);

$moz->select($func_class,$funcvalue);

        [download]

        THANK YOU FOR YOUR PATIENCE.

[reply]
[d/l]
[select]

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