If you would like to use my example scripts posted in this forum, follow these directions. You should be nominally familiar with how to use the command line. Note that I don’t use and can’t support the use of these scripts on Windows environments. Sorry!
Hardware / OS prerequisites
Most of the data mining scripts here require very little processing power. A basic Mac, circa 2005 or later, or Intel box running a variant of Linux should be sufficient.
Software
You will need the following software components:
[tr]
[td]Package[/td]
[td]Version[/td]
[td]Installation[/td]
[/tr]
[tr][td]Perl[/td][/tr]
[td]5.6.1 or higher[/td]
[td]presintalled on most systems[/td]
[/tr]
[tr]
[td]AcePerl[/td]
[td]1.89 or higher[/td]
[td]Installation docs on the WormBaseWiki
[/td]
[/tr]
[tr]
[td]Bio::DB::GFF[/td]
[td]1.5 or higher[/td]
[td]Installation docs on the [url=“http://www.wormbase.org/wiki/index.php/How_To_Build_A_WormBase_Mirror#Installing_BioPerl”]WormBaseWiki[/td]
[/tr]
Script usage
To use any of the scripts, you’ll need to save them on your system and know how to run them locally. Each script has a link where you can download the full script. I recommend you use that to avoid typing or cutting/pasting errors.
Once you have the script, you need to me it “executable”:
`
cd ~ // or wherever you downloaded the script to
Make the script executable
chmod 755 example_script.pl
Find out how to use the script
I use the same basic format for all of my scripts - this command will work for them all.
./example_script.pl --help
`
That’s it! Please let me know how things work for you!
Todd