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# -*-Perl-*-
## Bioperl Test Harness Script for Modules
## $Id: StructIO.t,v 1.4 2002/01/10 23:05:59 krbou Exp $
# Before `make install' is performed this script should be runnable with
# `make test'. After `make install' it should work as `perl test.t'
use strict;
BEGIN {
# to handle systems with no installed Test module
# we include the t dir (where a copy of Test.pm is located)
# as a fallback
eval { require Test; };
if( $@ ) {
use lib 't';
}
use Test;
plan tests => 9;
}
use Bio::Structure::Entry;
use Bio::Structure::IO;
use Bio::Root::IO;
ok(1);
# testing PDB format
my $pdb_file = Bio::Root::IO->catfile("t","data","pdb1bpt.ent"); # BPTI
my $structio = Bio::Structure::IO->new(-file => $pdb_file, -format => 'PDB');
ok(1);
my $struc = $structio->next_structure;
ok(1);
ok(ref($struc), "Bio::Structure::Entry");
# some basic checks, Structure objects are tested in Structure.t
my ($chain) = $struc->chain;
ok($struc->residue, 97);
my ($atom) = $struc->get_atom_by_serial(367);
ok($atom->id, "NZ");
ok($struc->parent($atom)->id, "LYS-46");
my ($ann) = $struc->annotation->get_Annotations("author");
ok($ann->as_text, "Value: D.HOUSSET,A.WLODAWER,F.TAO,J.FUCHS,C.WOODWARD ");
my $pseq = $struc->seqres;
ok($pseq->subseq(1,20), "RPDFCLEPPYTGPCKARIIR");
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