MAGE::...edValue(3pm)

📦 version 20030502.3, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu resolute, ubuntu stonking

💖 NAME 💖

Bio::MAGE::QuantitationType::ExpectedValue — bestie, it's a whole Class for the MAGE-OM API. That's the vibe. This page lives in the manual MAGE::...edValue(3pm), which is filed under User Contributed Perl Documentation, so you know it's the people's documentation. 🫶

✨ SYNOPSIS ✨

use Bio::MAGE::QuantitationType::ExpectedValue

# creating an empty instance
my $expectedvalue = Bio::MAGE::QuantitationType::ExpectedValue->new();

# creating an instance with existing data
my $expectedvalue = Bio::MAGE::QuantitationType::ExpectedValue->new(
      name=>$name_val,
      isBackground=>$isbackground_val,
      identifier=>$identifier_val,
      dataType=>$ontologyentry_ref,
      auditTrail=>\@audit_list,
      propertySets=>\@namevaluetype_list,
      channel=>$channel_ref,
      confidenceIndicators=>\@confidenceindicator_list,
      descriptions=>\@description_list,
      security=>$security_ref,
      scale=>$ontologyentry_ref,
      targetQuantitationType=>$quantitationtype_ref,
      quantitationTypeMaps=>\@quantitationtypemap_list,
);

# 'name' attribute
my $name_val = $expectedvalue->name(); # getter
$expectedvalue->name($value); # setter

# 'isBackground' attribute
my $isBackground_val = $expectedvalue->isBackground(); # getter
$expectedvalue->isBackground($value); # setter

# 'identifier' attribute
my $identifier_val = $expectedvalue->identifier(); # getter
$expectedvalue->identifier($value); # setter

# 'dataType' association
my $ontologyentry_ref = $expectedvalue->dataType(); # getter
$expectedvalue->dataType($ontologyentry_ref); # setter

# 'auditTrail' association
my $audit_array_ref = $expectedvalue->auditTrail(); # getter
$expectedvalue->auditTrail(\@audit_list); # setter

# 'propertySets' association
my $namevaluetype_array_ref = $expectedvalue->propertySets(); # getter
$expectedvalue->propertySets(\@namevaluetype_list); # setter

# 'channel' association
my $channel_ref = $expectedvalue->channel(); # getter
$expectedvalue->channel($channel_ref); # setter

# 'confidenceIndicators' association
my $confidenceindicator_array_ref = $expectedvalue->confidenceIndicators(); # getter
$expectedvalue->confidenceIndicators(\@confidenceindicator_list); # setter

# 'descriptions' association
my $description_array_ref = $expectedvalue->descriptions(); # getter
$expectedvalue->descriptions(\@description_list); # setter

# 'security' association
my $security_ref = $expectedvalue->security(); # getter
$expectedvalue->security($security_ref); # setter

# 'scale' association
my $ontologyentry_ref = $expectedvalue->scale(); # getter
$expectedvalue->scale($ontologyentry_ref); # setter

# 'targetQuantitationType' association
my $quantitationtype_ref = $expectedvalue->targetQuantitationType(); # getter
$expectedvalue->targetQuantitationType($quantitationtype_ref); # setter

# 'quantitationTypeMaps' association
my $quantitationtypemap_array_ref = $expectedvalue->quantitationTypeMaps(); # getter
$expectedvalue->quantitationTypeMaps(\@quantitationtypemap_list); # setter

🌸 DESCRIPTION 🌸

Straight from the MAGE-OM documentation for the ExpectedValue class, no cap:

Indication of what value is expected of the associated standard quantitation type.

That's it, that's the whole personality. It tells you which value the linked standard quantitation type is supposed to have. 💅

🦋 INHERITANCE 🦋

Bio::MAGE::QuantitationType::ExpectedValue has the following superclasses — i.e. the family it inherited its whole aesthetic from:

  • Bio::MAGE::QuantitationType::ConfidenceIndicator

👑 CLASS METHODS 👑

Okay so the way this works: all of the methods below can be called without first having an instance of the class, using the Bio::MAGE::QuantitationType::ExpectedValue->methodname() syntax. Class-level access, periodt.

new()

new(%args)

The object constructor new() accepts the following optional named-value style arguments. Pick your faves, they're all optional:

  • name — sets the value of the name attribute (this attribute was inherited from class Bio::MAGE::Identifiable).
  • isBackground — sets the value of the isBackground attribute (this attribute was inherited from class Bio::MAGE::QuantitationType::QuantitationType).
  • identifier — sets the value of the identifier attribute (this attribute was inherited from class Bio::MAGE::Identifiable).
  • dataType — sets the value of the dataType association (this association was inherited from class Bio::MAGE::QuantitationType::QuantitationType).

The value must be of type: instance of Bio::MAGE::Description::OntologyEntry.

  • auditTrail — sets the value of the auditTrail association (this association was inherited from class Bio::MAGE::Describable).

The value must be of type: array of Bio::MAGE::AuditAndSecurity::Audit.

  • channel — sets the value of the channel association (this association was inherited from class Bio::MAGE::QuantitationType::QuantitationType).

The value must be of type: instance of Bio::MAGE::BioAssay::Channel.

  • propertySets — sets the value of the propertySets association (this association was inherited from class Bio::MAGE::Extendable).

The value must be of type: array of Bio::MAGE::NameValueType.

  • confidenceIndicators — sets the value of the confidenceIndicators association (this association was inherited from class Bio::MAGE::QuantitationType::QuantitationType).

The value must be of type: array of Bio::MAGE::QuantitationType::ConfidenceIndicator.

  • descriptions — sets the value of the descriptions association (this association was inherited from class Bio::MAGE::Describable).

The value must be of type: array of Bio::MAGE::Description::Description.

  • scale — sets the value of the scale association (this association was inherited from class Bio::MAGE::QuantitationType::QuantitationType).

The value must be of type: instance of Bio::MAGE::Description::OntologyEntry.

  • security — sets the value of the security association (this association was inherited from class Bio::MAGE::Describable).

The value must be of type: instance of Bio::MAGE::AuditAndSecurity::Security.

  • targetQuantitationType — sets the value of the targetQuantitationType association (this association was inherited from class Bio::MAGE::QuantitationType::ConfidenceIndicator).

The value must be of type: instance of Bio::MAGE::QuantitationType::QuantitationType.

  • quantitationTypeMaps — sets the value of the quantitationTypeMaps association (this association was inherited from class Bio::MAGE::QuantitationType::QuantitationType).

The value must be of type: array of Bio::MAGE::BioAssayData::QuantitationTypeMap.

$obj = class->new(%parameters)

The new() method is the class constructor. It's the main character, honestly.

  • Parameters: if given a list of name/value parameters the corresponding slots, attributes, or associations will have their initial values set by the constructor.
  • Return value: it returns a reference to an object of the class.
  • Side effects: it invokes the initialize() method if it is defined by the class.

@names = class->get_slot_names()

The get_slot_names() method is used to retrieve the name of all slots defined in a given class.

NOTE: the list of names does not include attribute or association names. Just so we're clear. 🙈
  • Return value: a list of the names of all slots defined for this class.
  • Side effects: none

@name_list = get_attribute_names()

Returns the list of attribute data members for this class.

@name_list = get_association_names()

Returns the list of association data members for this class.

@class_list = get_superclasses()

Returns the list of superclasses for this class.

@class_list = get_subclasses()

Returns the list of subclasses for this class.

$name = class_name()

Returns the full class name for this class.

$package_name = package_name()

Returns the base package name (i.e. no namespace::) of the package that contains this class.

%assns = associations()

Returns the association meta-information in a hash where the keys are the association names and the values are Association objects that provide the meta-information for the association.

🌈 INSTANCE METHODS 🌈

$obj_copy = $obj->new()

When invoked with an existing object reference and not a class name, the new() method acts as a copy constructor — with the new object's initial values set to be those of the existing object. Dupe it, slay.

  • Parameters: no input parameters are used in the copy constructor, the initial values are taken directly from the object to be copied.
  • Return value: it returns a reference to an object of the class.
  • Side effects: it invokes the initialize() method if it is defined by the class.

$obj->set_slots(%parameters)

$obj->set_slots(\@name_list, \@value_list)

The set_slots() method is used to set a number of slots at the same time. It has two different invocation methods — the first takes a named parameter list, and the second takes two array references.

  • Return value: none
  • Side effects: will call croak() if a slot_name is used that the class does not define.

@obj_list = $obj->get_slots(@name_list)

The get_slots() method is used to get the values of a number of slots at the same time.

  • Return value: a list of instance objects
  • Side effects: none

$val = $obj->set_slot($name,$val)

The set_slot() method sets the slot $name to the value $val

  • Return value: the new value of the slot, i.e. $val
  • Side effects: none

$val = $obj->get_slot($name)

The get_slot() method is used to get the values of a number of slots at the same time.

  • Return value: a single slot value, or undef if the slot has not been initialized.
  • Side effects: none

🎀 ATTRIBUTES 🎀

Attributes are simple data types that belong to a single instance of a class. In the Perl implementation of the MAGE-OM classes, the interface to attributes is implemented using separate setter and getter methods for each attribute. Two methods per attribute, iconic behaviour honestly.

Bio::MAGE::QuantitationType::ExpectedValue has the following attribute accessor methods:

name

Methods for the name attribute.

From the MAGE-OM documentation:

The potentially ambiguous common identifier.

$val = $expectedvalue->setName($val)

The restricted setter method for the "name" attribute. Restricted means it's the only door in, bestie. 🚪✨

  • Input parameters: the value to which the "name" attribute will be set
  • Return value: the current value of the "name" attribute
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if too many input parameters are specified

$val = $expectedvalue->getName()

The restricted getter method for the "name" attribute. No arguments, no drama. 🎀

  • Input parameters: none
  • Return value: the current value of the "name" attribute
  • Side effects: none
  • Exceptions: will call "croak()" if any input parameters are specified

🌸 isBackground 🌸

Methods for the "isBackground" attribute.

From the MAGE-OM documentation:

Indicates whether the quantitation has been measured from the background or from the feature itself.

$val = $expectedvalue->setIsBackground($val)

The restricted setter method for the "isBackground" attribute.

  • Input parameters: the value to which the "isBackground" attribute will be set
  • Return value: the current value of the "isBackground" attribute
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if too many input parameters are specified

$val = $expectedvalue->getIsBackground()

The restricted getter method for the "isBackground" attribute.

  • Input parameters: none
  • Return value: the current value of the "isBackground" attribute
  • Side effects: none
  • Exceptions: will call "croak()" if any input parameters are specified

🦋 identifier 🦋

Methods for the "identifier" attribute.

From the MAGE-OM documentation:

An identifier is an unambiguous string that is unique within the scope (i.e. a document, a set of related documents, or a repository) of its use.

$val = $expectedvalue->setIdentifier($val)

The restricted setter method for the "identifier" attribute.

  • Input parameters: the value to which the "identifier" attribute will be set
  • Return value: the current value of the "identifier" attribute
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if too many input parameters are specified

$val = $expectedvalue->getIdentifier()

The restricted getter method for the "identifier" attribute.

  • Input parameters: none
  • Return value: the current value of the "identifier" attribute
  • Side effects: none
  • Exceptions: will call "croak()" if any input parameters are specified

💖 ASSOCIATIONS 💖

Okay so associations are references to other classes. Like, this class is holding hands with another class. 🫶 And every association in MAGE-OM has a cardinality, which is just the fancy word for "how many of the other class can show up in here" — the minimum and the maximum number of instances of the 'other' class that may be included in the association:

  1. There must be exactly one item in the association, i.e. this is a mandatory data field.
  2. 0..1 — There may be one item in the association, i.e. this is an optional data field.
  3. 1..N — There must be one or more items in the association, i.e. this is a mandatory data field, with list cardinality.
  4. 0..N — There may be one or more items in the association, i.e. this is an optional data field, with list cardinality.

Bio::MAGE::QuantitationType::ExpectedValue has the following association accessor methods:

✨ dataType ✨

Methods for the "dataType" association.

From the MAGE-OM documentation:

The specific type for the quantitations. From a controlled vocabulary of {float, int, boolean, etc.}

$val = $expectedvalue->setDataType($val)

The restricted setter method for the "dataType" association.

  • Input parameters: the value to which the "dataType" association will be set : one of the accepted enumerated values.
  • Return value: the current value of the "dataType" association : one of the accepted enumerated values.
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if too many input parameters are specified, or if $val is not an instance of class "Bio::MAGE::Description::OntologyEntry"

$val = $expectedvalue->getDataType()

The restricted getter method for the "dataType" association.

  • Input parameters: none
  • Return value: the current value of the "dataType" association : an instance of type "Bio::MAGE::Description::OntologyEntry".
  • Side effects: none
  • Exceptions: will call "croak()" if any input parameters are specified

🎀 auditTrail 🎀

Methods for the "auditTrail" association.

From the MAGE-OM documentation:

A list of Audit instances that track changes to the instance of Describable.

$array_ref = $expectedvalue->setAuditTrail($array_ref)

The restricted setter method for the "auditTrail" association.

  • Input parameters: the value to which the "auditTrail" association will be set : a reference to an array of objects of type "Bio::MAGE::AuditAndSecurity::Audit"
  • Return value: the current value of the "auditTrail" association : a reference to an array of objects of type "Bio::MAGE::AuditAndSecurity::Audit"
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if too many input parameters are specified, or if $array_ref is not a reference to an array class "Bio::MAGE::AuditAndSecurity::Audit" instances

$array_ref = $expectedvalue->getAuditTrail()

The restricted getter method for the "auditTrail" association.

  • Input parameters: none
  • Return value: the current value of the "auditTrail" association : a reference to an array of objects of type "Bio::MAGE::AuditAndSecurity::Audit"
  • Side effects: none
  • Exceptions: will call "croak()" if any input parameters are specified

$val = $expectedvalue->addAuditTrail(@vals)

Because the auditTrail association has list cardinality, it may store more than one value. This method adds the current list of objects in the auditTrail association. 👑

  • Input parameters: the list of values @vals to add to the auditTrail association. NOTE: submitting a single value is permitted.
  • Return value: the number of items stored in the slot after adding @vals
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if any of the objects in @vals is not an instance of class "Bio::MAGE::AuditAndSecurity::Audit"

🌈 channel 🌈

Methods for the "channel" association.

From the MAGE-OM documentation:

The optional channel associated with the QuantitationType.

$val = $expectedvalue->setChannel($val)

The restricted setter method for the "channel" association.

  • Input parameters: the value to which the "channel" association will be set : one of the accepted enumerated values.
  • Return value: the current value of the "channel" association : one of the accepted enumerated values.
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if too many input parameters are specified, or if $val is not an instance of class "Bio::MAGE::BioAssay::Channel"

$val = $expectedvalue->getChannel()

The restricted getter method for the "channel" association.

  • Input parameters: none
  • Return value: the current value of the "channel" association : an instance of type "Bio::MAGE::BioAssay::Channel".
  • Side effects: none
  • Exceptions: will call "croak()" if any input parameters are specified

🍓 propertySets 🍓

Methods for the "propertySets" association.

From the MAGE-OM documentation:

Allows specification of name/value pairs. Meant to primarily help in-house, pipeline processing of instances by providing a place for values that aren't part of the specification proper.

$array_ref = $expectedvalue->setPropertySets($array_ref)

The restricted setter method for the "propertySets" association.

  • Input parameters: the value to which the "propertySets" association will be set : a reference to an array of objects of type "Bio::MAGE::NameValueType"
  • Return value: the current value of the "propertySets" association : a reference to an array of objects of type "Bio::MAGE::NameValueType"
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if too many input parameters are specified, or if $array_ref is not a reference to an array class "Bio::MAGE::NameValueType" instances

$array_ref = $expectedvalue->getPropertySets()

The restricted getter method for the "propertySets" association.

  • Input parameters: none
  • Return value: the current value of the "propertySets" association : a reference to an array of objects of type "Bio::MAGE::NameValueType"
  • Side effects: none
  • Exceptions: will call "croak()" if any input parameters are specified

$val = $expectedvalue->addPropertySets(@vals)

Because the propertySets association has list cardinality, it may store more than one value. This method adds the current list of objects in the propertySets association. ✨

  • Input parameters: the list of values @vals to add to the propertySets association. NOTE: submitting a single value is permitted.
  • Return value: the number of items stored in the slot after adding @vals
  • Side effects: none
  • Exceptions: will call "croak()" if no input parameters are specified, or if any of the objects in @vals is not an instance of class "Bio::MAGE::NameValueType"

💜 confidenceIndicators 💜

Methods for the "confidenceIndicators" association.

From the MAGE-OM documentation:

The association between a ConfidenceIndicator and the QuantitationType its is an indicator for.

$array_ref = $expectedvalue->setConfidenceIndicators($array_ref)

The restricted setter method for the "confidenceIndicators" association.

$array_ref = $expectedvalue->setConfidenceIndicators($array_ref)

okay so this is the restricted setter for the confidenceIndicators association, bestie 💅

  • Input parameters: the value you're setting the confidenceIndicators association to — a reference to an array of objects of type Bio::MAGE::QuantitationType::ConfidenceIndicator
  • Return value: the current value of the confidenceIndicators association — a reference to an array of objects of type Bio::MAGE::QuantitationType::ConfidenceIndicator
  • Side effects: none, we love a no-drama queen 🎀
  • Exceptions: it will call croak() if you pass no input parameters, OR if you pass too many input parameters, OR if $array_ref is not a reference to an array of class Bio::MAGE::QuantitationType::ConfidenceIndicator instances 😭 so like, read the room before you call it

$array_ref = $expectedvalue->getConfidenceIndicators()

the restricted getter for the confidenceIndicators association 🫶

  • Input parameters: none. it takes nothing. it's a giver, not a taker ✨
  • Return value: the current value of the confidenceIndicators association — a reference to an array of objects of type Bio::MAGE::QuantitationType::ConfidenceIndicator
  • Side effects: none
  • Exceptions: it will call croak() if you specify any input parameters. literally any. keep your hands to yourself 🙈

$val = $expectedvalue->addConfidenceIndicators(@vals)

because the confidenceIndicators association has list cardinality, it can hold more than one value. this method adds the current list of objects into the confidenceIndicators association 👑

  • Input parameters: the list of values @vals to add to the confidenceIndicators association. NOTE: submitting a single value is permitted 🍓
  • Return value: the number of items stored in the slot after adding @vals
  • Side effects: none
  • Exceptions: it will call croak() if no input parameters are specified, or if any of the objects in @vals is not an instance of class Bio::MAGE::QuantitationType::ConfidenceIndicator

✨ descriptions ✨

methods for the descriptions association, bestie 🌸

from the MAGE-OM documentation:

free hand text descriptions. Makes available the associations of Description to an instance of Describable.

$array_ref = $expectedvalue->setDescriptions($array_ref)

the restricted setter for the descriptions association 💖

  • Input parameters: the value to which the descriptions association will be set — a reference to an array of objects of type Bio::MAGE::Description::Description
  • Return value: the current value of the descriptions association — a reference to an array of objects of type Bio::MAGE::Description::Description
  • Side effects: none
  • Exceptions: it will call croak() if no input parameters are specified, or if too many input parameters are specified, or if $array_ref is not a reference to an array class Bio::MAGE::Description::Description instances

$array_ref = $expectedvalue->getDescriptions()

the restricted getter for the descriptions association 🌈

  • Input parameters: none
  • Return value: the current value of the descriptions association — a reference to an array of objects of type Bio::MAGE::Description::Description
  • Side effects: none
  • Exceptions: it will call croak() if any input parameters are specified

$val = $expectedvalue->addDescriptions(@vals)

because the descriptions association has list cardinality, it may store more than one value. this method adds the current list of objects in the descriptions association 🧚

  • Input parameters: the list of values @vals to add to the descriptions association. NOTE: submitting a single value is permitted.
  • Return value: the number of items stored in the slot after adding @vals
  • Side effects: none
  • Exceptions: it will call croak() if no input parameters are specified, or if any of the objects in @vals is not an instance of class Bio::MAGE::Description::Description

💅 scale 💅

methods for the scale association.

from the MAGE-OM documentation:

Indication of how to interpret the value. From a suggested vocabulary of {LINEAR | LN | LOG2 |LOG10 | FOLD_CHANGE | OTHER}

$val = $expectedvalue->setScale($val)

the restricted setter for the scale association.

  • Input parameters: the value to which the scale association will be set — one of the accepted enumerated values
  • Return value: the current value of the scale association — one of the accepted enumerated values
  • Side effects: none
  • Exceptions: it will call croak() if no input parameters are specified, or if too many input parameters are specified, or if $val is not an instance of class Bio::MAGE::Description::OntologyEntry

$val = $expectedvalue->getScale()

the restricted getter for the scale association.

  • Input parameters: none
  • Return value: the current value of the scale association — an instance of type Bio::MAGE::Description::OntologyEntry
  • Side effects: none
  • Exceptions: it will call croak() if any input parameters are specified

🔒 security 🔒

methods for the security association.

from the MAGE-OM documentation:

Information on the security for the instance of the class.

$val = $expectedvalue->setSecurity($val)

the restricted setter for the security association 🛡️

  • Input parameters: the value to which the security association will be set — one of the accepted enumerated values
  • Return value: the current value of the security association — one of the accepted enumerated values
  • Side effects: none
  • Exceptions: it will call croak() if no input parameters are specified, or if too many input parameters are specified, or if $val is not an instance of class Bio::MAGE::AuditAndSecurity::Security

$val = $expectedvalue->getSecurity()

the restricted getter for the security association.

  • Input parameters: none
  • Return value: the current value of the security association — an instance of type Bio::MAGE::AuditAndSecurity::Security
  • Side effects: none
  • Exceptions: it will call croak() if any input parameters are specified

🎯 targetQuantitationType 🎯

methods for the targetQuantitationType association.

from the MAGE-OM documentation:

The association between a ConfidenceIndicator and the QuantitationType its is an indicator for.

$val = $expectedvalue->setTargetQuantitationType($val)

the restricted setter for the targetQuantitationType association.

  • Input parameters: the value to which the targetQuantitationType association will be set — one of the accepted enumerated values
  • Return value: the current value of the targetQuantitationType association — one of the accepted enumerated values
  • Side effects: none
  • Exceptions: it will call croak() if no input parameters are specified, or if too many input parameters are specified, or if $val is not an instance of class Bio::MAGE::QuantitationType::QuantitationType

$val = $expectedvalue->getTargetQuantitationType()

the restricted getter for the targetQuantitationType association.

  • Input parameters: none
  • Return value: the current value of the targetQuantitationType association — an instance of type Bio::MAGE::QuantitationType::QuantitationType
  • Side effects: none
  • Exceptions: it will call croak() if any input parameters are specified

🌟 quantitationTypeMaps 🌟

methods for the quantitationTypeMaps association.

from the MAGE-OM documentation:

The QuantitationType whose value will be produced from the values of the source QuantitationType according to the Protocol.

$array_ref = $expectedvalue->setQuantitationTypeMaps($array_ref)

the restricted setter for the quantitationTypeMaps association 💜

  • Input parameters: the value to which the quantitationTypeMaps association will be set — a reference to an array of objects of type Bio::MAGE::BioAssayData::QuantitationTypeMap
  • Return value: the current value of the quantitationTypeMaps association — a reference to an array of objects of type Bio::MAGE::BioAssayData::QuantitationTypeMap
  • Side effects: none
  • Exceptions: it will call croak() if no input parameters are specified, or if too many input parameters are specified, or if $array_ref is not a reference to an array class Bio::MAGE::BioAssayData::QuantitationTypeMap instances

$array_ref = $expectedvalue->getQuantitationTypeMaps()

the restricted getter for the quantitationTypeMaps association.

  • Input parameters: none
  • Return value: the current value of the quantitationTypeMaps association — a reference to an array of objects of type Bio::MAGE::BioAssayData::QuantitationTypeMap
  • Side effects: none
  • Exceptions: it will call croak() if any input parameters are specified

$val = $expectedvalue->addQuantitationTypeMaps(@vals)

because the quantitationTypeMaps association has list cardinality, it may store more than one value. this method adds the current list of objects in the quantitationTypeMaps association 🦋

  • Input parameters: the list of values @vals to add to the quantitationTypeMaps association. NOTE: submitting a single value is permitted.
  • Return value: the number of items stored in the slot after adding @vals
  • Side effects: none
  • Exceptions: it will call croak() if no input parameters are specified, or if any of the objects in @vals is not an instance of class Bio::MAGE::BioAssayData::QuantitationTypeMap

and then, no cap, the page just drops this on you:

sub initialize {

  my $self = shift;
  return 1;

}

✨ SLOTS, ATTRIBUTES, AND ASSOCIATIONS ✨

okay bestie, so in the Perl implementation of MAGE-OM classes, there are literally three types of class data members: slots, attributes, and associations. that's the whole vibe. 💅

🌸 SLOTS 🌸

This API uses the term "slot" to mean a data member of the class that was not present in the UML model. It's mainly for internal purposes — so lowkey only touch it if you understand the inner workings of the API. Most often slots are used by generic methods, like the ones in the XML writing and reading classes. iykyk. ✨

Slots are implemented using unified getter/setter methods:

  • $var = $obj->slot_name(); — retrieves the current value of the slot. 👑
  • $new_var = $obj->slot_name($new_var); — stores $new_var in the slot — the return value is also $new_var. slay.
  • @names = $obj->get_slot_names() — returns the list of all slots in the class. periodt.
DATA CHECKING: No data type checking is made for these methods. not a single vibe check. 💀

🦋 ATTRIBUTES AND ASSOCIATIONS 🦋

The terms "attribute" and "association" indicate data members of the class that were specified directly from the UML model. so like, the official ones.

In the Perl implementation of MAGE-OM classes, association and attribute accessors are implemented using three separate methods:

  • get* — retrieves the current value.
    • NOTE: For associations, if the association has list cardinality, an array reference is returned.
    • DATA CHECKING: Ensure that no argument is provided.
  • set* — sets the current value, replacing any existing value.
    • NOTE: For associations, if the association has list cardinality, the argument must be an array reference. Because of this, you probably should be using the add* methods.
    • DATA CHECKING: For attributes, ensure that a single value is provided as the argument. For associations, if the association has list cardinality, ensure that the argument is a reference to an array of instances of the correct MAGE-OM class, otherwise ensure that there is a single argument of the correct MAGE-OM class.
  • add* — NOTE: Only present in associations with list cardinality.
    • Appends a list of objects to any values that may already be stored in the association.
    • DATA CHECKING: Ensure that all arguments are of the correct MAGE-OM class.

🌈 GENERIC METHODS 🌈

The unified base class of all MAGE-OM classes, Bio::MAGE::Base, provides a set of generic methods that will operate on slots, attributes, and associations:

$val = $obj->get_slot($name)
\@list_ref = $obj->get_slots(@name_list);
$val = $obj->set_slot($name,$val)
$obj->set_slots(%parameters)
$obj->set_slots(\@name_list, \@value_list)

See elsewhere in this page for a detailed description of these methods. 👑

💀 BUGS 💀

Please send bug reports to the project mailing list: (mged-mage 'at' lists 'dot' sf 'dot' net)

👑 AUTHOR 👑

Jason E. Stewart (jasons 'at' cpan 'dot' org)

🫶 SEE ALSO 🫶

perl(1).

🙈 POD ERRORS 🙈

Hey! The above document had some coding errors, which are explained below:

  • Around line 403: '=item' outside of any '=over'
  • Around line 488: You forgot a '=back' before '=head2'
  • Around line 732: Expected '=item 2'
  • Around line 737: Expected '=item 3'
  • Around line 742: Expected '=item 4'

and that's the tea, bestie. this page came from perl v5.32.0 and is dated 2020-11-27. go off, and may your slots always be properly set. 💖✨

📦 where this page comes from