annotate t/lib/massbank_api_Test.pm @ 0:023c380900ef draft default tip

Init repository with last massbank_ws_searchspectrum master version

package lib::massbank_api_Test ;

use diagnostics; # this gives you more debugging information
use warnings;    # this warns you of bad practices
use strict;      # this prevents silly errors
use Exporter ;
use Carp ;

use Data::Dumper ;

our $VERSION = "1.0";
our @ISA = qw(Exporter);
our @EXPORT = qw(   initRecordObjectTest threading_methods_getRecordInfoTest connectMassBankTest connectMassBankJPTest connectMassBankDETest getInstrumentTypesTest getRecordInfoTest searchSpectrumTest searchSpectrumNBTest getPeakTest);
our %EXPORT_TAGS = ( ALL => [qw(  initRecordObjectTest threading_methods_getRecordInfoTest connectMassBankTest connectMassBankJPTest connectMassBankDETest getInstrumentTypesTest getRecordInfoTest searchSpectrumTest searchSpectrumNBTest getPeakTest)] );

use lib '/Users/fgiacomoni/Inra/labs/perl/galaxy_tools/massbank_ws_searchspectrum' ;
use lib::massbank_api qw( :ALL ) ;
use lib::threader qw( :ALL ) ;
use lib::mapper qw( :ALL ) ;


my $server = 'JP' ;

sub connectMassBankTest {
	my ($uri, $proxy) = @_ ;
    my $oBih = lib::massbank_api->new() ;
    my ($soap) = $oBih->connectMassBank($uri, $proxy) ;
    return ($soap) ;
}

sub connectMassBankJPTest {
    my $oBih = lib::massbank_api->new() ;
    my ($soap) = $oBih->connectMassBankJP() ;
    return ($soap) ;
}

sub connectMassBankDETest {
    my $oBih = lib::massbank_api->new() ;
    my ($soap) = $oBih->connectMassBankDE() ;
    return ($soap) ;
}

sub getInstrumentTypesTest {
	my ($server) = @_ ;
	my $osoap = undef ;
    my $oBih = lib::massbank_api->new() ;
    
    if ($server eq 'JP') { 		($osoap) = $oBih->connectMassBankJP() ; }
    elsif ($server eq 'EU') {	($osoap) = $oBih->connectMassBankDE() ; }
    else {						croak "Can't call an unknown server through MassBank API\n" ; }
    
    my $res = $oBih->getInstrumentTypes($osoap) ;
    return ($res) ;
}

sub getRecordInfoTest {
	my ($server, $ids) = @_ ;
	
	my $oBih = lib::massbank_api->new() ;
    my ($osoap) = $oBih->selectMassBank($server) ;
    my ($res) = $oBih->getRecordInfo($osoap, $ids) ;

    return($res) ;
}


sub searchSpectrumTest {
	my ($mzs, $intensities, $ion, $instruments, $max, $unit, $tol, $cutoff) = @_ ;
	my $pcgroup_id = 1 ;
	my $oBih = lib::massbank_api->new() ;
    my ($osoap) = $oBih->selectMassBank($server) ;
    my ($res, $num) = $oBih->searchSpectrum($osoap, $pcgroup_id, $mzs, $intensities, $ion, $instruments, $max, $unit, $tol, $cutoff) ;
    print Dumper $res ;
    return($res) ;
}

sub searchSpectrumNBTest {
	my ($mzs, $intensities, $ion, $instruments, $max, $unit, $tol, $cutoff) = @_ ;
	my $pcgroup_id = 1 ;
	my $oBih = lib::massbank_api->new() ;
    my ($osoap) = $oBih->selectMassBank($server) ;
    my ($res, $num) = $oBih->searchSpectrum($osoap, $pcgroup_id, $mzs, $intensities, $ion, $instruments, $max, $unit, $tol, $cutoff) ;
    return($num) ;
}

sub getPeakTest {
	my ($ids) = @_ ;
	
	my $oBih = lib::massbank_api->new() ;
    my ($osoap) = $oBih->selectMassBank($server) ;
    my ($res) = $oBih->getPeak($osoap, $ids) ;
    return($res) ;
}

sub threading_methods_getRecordInfoTest {
	my ($ids) = @_ ;
	
	my $results = undef ;
	my $othreads = lib::threader->new() ;
	my $oquery = lib::massbank_api->new() ;
	my ($osoap) = $oquery->selectMassBank($server) ;
	$results = $othreads->threading_getRecordInfo($osoap, $ids) ; 
	return($results) ;
}

## SUB TEST for initRecordObject
sub initRecordObjectTest {
    # get values
    my ( $string ) = @_;
    
    my $omassbank = lib::massbank_api->new() ;
    my $record = $omassbank->initRecordObject($string) ;
#    print Dumper $record ;
    return($record) ;
}
## End SUB


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