5 Function2Gene requires the following modules and programs to work
14 The operating system-specific instructions below will help you to
15 install these modules.
19 If you're running a reasonably modern Linux (or other UNIX variant,
20 like MacOS X) you already have perl and wget. If so, you can install
21 the remaining modules by doing the following:
23 cpan install HTML::TreeBuilder
24 cpan install HTML::Element::Extended
25 cpan install XML::Parser
27 If you are running Debian, you can just run the following:
29 aptitude install wget perl libhtml-element-extended-perl libxml-parser-perl
33 If you are using a windows-based machine, first consider switching to (or
34 dual-booting) Debian or Ubuntu or a similar Free Software distribution. If
35 switching isn't for you, you will need to install cygwin (a linux-like
36 environment for windows), which (by default) will install perl and wget.
38 You can then use the cpan commands listed above to install the required
41 cpan install HTML::TreeBuilder
42 cpan install HTML::Element::Extended
43 cpan install XML::Parser
45 Other Operating Systems
47 If you are using another operating system (minux, MacOS 9, UNIVAX, Plan9,
48 OS/2, etc.) you're on your own.
53 All of the programs are located within a bin directory. For a
54 demonstration, you can simply do the following:
57 echo 'transferrin' > keywords.txt
58 function2gene --keywords keywords.txt --results keyword_results;