Perl is looking for bin/ExecuteConfigureBioMartBuilder.pm in its error message. But there only is ./ExecuteConfigureBioMartBuilder.pm. You need to put the module into a bin/ directory or put both, the module and the script into a bin/ directory and launch the script from one level higher.

This is what i thought but I couldn't get it to work. I created a bin directory in my current directory and copied the file there and it still couldn't find it. I made a bin directory in c:\perl\site\lib and copied the file there and it could find it. I don't understand why the second option worked but the first option failed. The disturbing thing though is that the people who I got these files from are adamant in their installation instructions that you should not move/copy files under any circumstances

So, as you didn't post any details, let me make some assumptions. You have a directory tree that looks like this:

C:/Documents and Settings/Administrator/Desktop/Code/BioPerl/testscrip
+t.pl
C:/Documents and Settings/Administrator/Desktop/Code/BioPerl/ExecuteCo
+nfigureBioMartBuilder.pm
[download]

But looking at the code, there are some errors in it. First of all, the code is invalid, because it uses qw() and you have a path with whitespace in directory/filenames. Change that to:

use lib 'C:/Documents and Settings/Administrator/Desktop/Code/BioPerl/
+';
[download]

Second, if you use lib, Perl will search modules in and below that directory. And the use statement:

use bin::ExecuteConfigureBioMartBuilder;
[download]

tells Perl to go looking for a file bin/ExecuteConfigureBioMartBuilder.pm. And it can't find that. So, change your tree to look like the following for example:

C:/Documents and Settings/Administrator/Desktop/Code/BioPerl/testscrip
+t.pl
C:/Documents and Settings/Administrator/Desktop/Code/BioPerl/bin/Execu
+teConfigureBioMartBuilder.pm
[download]

Then, Perl should find the module.