NAME

MS::Reader::XML::Record::CV - Base class for XML-based records with support for referenceableParamGroups

SYNOPSIS

    package MS::Reader::Foo::Bar;
    use parent MS::Reader::XML::Record::CV;

    # ...

    package main;

    use MS::Reader::Foo;

    my $run = MS::Reader::Foo->new('run.foo');

    while (my $record = $foo->next_bar() {
       
        my ($val, $units) = $record->param( SOME_PARAM );

    }

DESCRIPTION

MS::Reader::XML::Record::CV is the base class for XML-based parsing records that utilize referenceableParamGroups. The class and its methods are not generally called directly, but publicly available methods are documented below.

METHODS

param

    use MS::CV qw/:MS/;
    my ($val, $units) = $obj->param( SOME_CV );
    my $val = $obj->param(
        SOME_CV,
        index => 2,
    );
    my $val = $obj->param(
        SOME_CV,
        index => 2,
        ref => $some_ref,
    );

Takes a single required argument, the CV term to be looked up. In scalar context, returns the value of the term if found or else undefined. In list context, returns the value and the units of the value. One or both items can be undefined if not found.

The method can also take two optional named arguments:

• index — the index of the parameter to retrieve. Some CV parameters can be repeated, and this option can be used to access each one. Default: 0.

• ref — a hash reference pointing to an internal data structure. This is used when the CV param to be looked up is not directly attached to the object making the call, but possibly to a part of it's internal structure. Generally, ths is used in implementing class methods internally, as its use requires a knowledge of the underlying data structure.

CAVEATS AND BUGS

The API is in alpha stage and is not guaranteed to be stable.

Please reports bugs or feature requests through the issue tracker at https://github.com/jvolkening/p5-MS/issues.

AUTHOR

Jeremy Volkening <jdv@base2bio.com>

COPYRIGHT AND LICENSE

Copyright 2015-2016 Jeremy Volkening

This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see <http://www.gnu.org/licenses/>.