LICENSE

Copyright [1999-2015] Wellcome Trust Sanger Institute and the EMBL-European Bioinformatics Institute Copyright [2016-2024] EMBL-European Bioinformatics Institute

Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at

     http://www.apache.org/licenses/LICENSE-2.0

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NAME Programs

SYSNOPSIS

    use Bio::EnsEMBL::Analysis::Programs qw( efetch getz est2genome 
                     /usr/local/bin/this_one
                     ~me/some/path/my_prog
                     ~/../jane/bin/her_prog );

    # Can also do at run time
    Bio::EnsEMBL::Analysis::Programs->import( $someProg );

    $path_to_prog = $Bio::EnsEMBL::Analysis::Programs::Program_Paths{ $prog };

DESCRIPTION

Programs is used to check at compile time for the presence of executables which will be called from your script. Arguments passed via the use statement can be just the program name, or an absolute or relative path to the program. Tildes are expanded correctly (not using "glob"). Failure to find any one program is fatal, and a list of all failures is printed, along with the host''s name.

If you want to check for a program during run time, the import funtion can be called directly, as shown above.

The paths to each program found are stored in the %Program_Paths hash, which is keyed on the original arguments passed.

BUGS

If the executable is in the root directory, then it''s found path will appear as "//prog" in %Program_Paths, not "/prog".

AUTHOR

James Gilbert Email jgrg@sanger.ac.uk