interproscan
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interproscan [2009/09/11 06:27] – 172.26.0.166 | interproscan [2009/11/12 05:07] – 172.26.0.166 | ||
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- | ====== Interproscan | + | ===== Interproscan ===== |
Check configuration to use LSF. | Check configuration to use LSF. | ||
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Change EBI logo to ILRI logo on wait page. | Change EBI logo to ILRI logo on wait page. | ||
+ | |||
+ | ===== Installation ===== | ||
+ | ==== Requirements ==== | ||
+ | From the readme, in addition to Bioperl, these packages must be installed on the head node and any compute nodes! Make sure they work! | ||
+ | < | ||
+ | 1.1 Perl | ||
+ | The InterProScan package has been developed in Perl5 under UNIX and requires | ||
+ | that various perl modules be installed beforehand. | ||
+ | modules are available via the CPAN website (http:// | ||
+ | * DB_File.pm - the interface to Berkeley DB, which is a part of the standard Perl5 distribution. | ||
+ | * XML:: | ||
+ | BlastProDom and to parse xml outputs. | ||
+ | * XML::Quote | ||
+ | * English | ||
+ | * File:: | ||
+ | * File::Copy | ||
+ | * File::Path | ||
+ | * File:: | ||
+ | * Sys:: | ||
+ | * Mail::Send | ||
+ | * FileHandle | ||
+ | * IO::Scalar | ||
+ | * CGI | ||
+ | * URI::Escape | ||
+ | * IO:: | ||
+ | |||
+ | Here is a script you can use to test if these modules are working on a particular node: | ||
+ | < | ||
+ | |||
+ | use DB_File; | ||
+ | use XML:: | ||
+ | use XML::Quote; | ||
+ | use English; | ||
+ | use File:: | ||
+ | use File::Copy; | ||
+ | use File::Path; | ||
+ | use File:: | ||
+ | use Sys:: | ||
+ | use Mail::Send; | ||
+ | use FileHandle; | ||
+ | use IO::Scalar; | ||
+ | use CGI; | ||
+ | use URI:: | ||
+ | use IO::String; | ||
+ | use Bio::Perl; | ||
+ | |||
+ | exit;</ | ||
+ | Run it on a node like this: | ||
+ | < | ||
+ | |||
+ | </ | ||
+ | If it is successful you should not see any output. |
interproscan.txt · Last modified: 2011/07/21 10:27 by aorth