Class: Project

Inherits:
ApplicationRecord show all
Includes:
Housekeeping::AssociationHelpers, Housekeeping::Timestamps, Housekeeping::Users, Preferences
Defined in:
app/models/project.rb,
app/models/project/preferences.rb

Overview

A project is a team's wrapper for a group of data. Most data is project specific, with a few exceptions. A project has many users, and one or more project administrators. With the exception of “Workers” who can only see and therefore use certain elements of the workbench all members of a project share the same privileges. A projects members are therefor well trained and trusted contributors to the project.

Defined Under Namespace

Modules: Preferences

Constant Summary collapse

MANIFEST =

ORDER MATTERS Used in `nuke` order (not available in production UI), but ultimately also for dumping records.

The intent is to use `delete_all` for speed. This means that callbacks are not fired (associated destroys).

%w{
 Observation  
 CitationTopic
 Citation
 Note   
 CharacterState     
 Protocol
 AlternateValue
 DataAttribute
 TaggedSectionKeyword
 Tag
 Confidence
 Role
 SledImage
 Label
 Attribution
 DwcOccurrence
 ProtocolRelationship
 SqedDepiction
 Depiction
 Documentation
 Document
 CollectionObjectObservation
 DerivedCollectionObject
 PinboardItem
 AssertedDistribution
 BiocurationClassification
 BiologicalRelationshipType
 BiologicalAssociationsBiologicalAssociationsGraph
 BiologicalAssociation
 BiologicalRelationship
 BiologicalAssociationsGraph
 CollectionProfile
 ContainerItem
 Container
 PublicContent
 Content
 Georeference
 Identifier
 LoanItem
 Loan
 OtuPageLayoutSection
 OtuPageLayout
 ProjectSource
 TaxonDetermination
 TypeMaterial
 CollectingEvent
 RangedLotCategory
 Image
 CommonName
 TaxonNameClassification
 TaxonNameRelationship
 ControlledVocabularyTerm
 OriginRelationship
 Sequence
 SequenceRelationship
 Extract
 GeneAttribute
 ObservationMatrixColumn 
 ObservationMatrixColumnItem
 ObservationMatrixRow
 ObservationMatrixRowItem
 ObservationMatrix
 CollectionObject
 Otu
 TaxonName
 Descriptor
 ProjectMember
 Download
 DatasetRecordField
 DatasetRecord
 ImportDataset
}

Constants included from Preferences

Preferences::BASE_PREFERENCES

Instance Attribute Summary collapse

Attributes included from Housekeeping::Users

#by

Class Method Summary collapse

Instance Method Summary collapse

Methods included from Preferences

#fill_preferences, #layout=, #reset_preferences

Methods included from Housekeeping::AssociationHelpers

#has_many_relationship_classes, #has_many_relationships

Methods included from Housekeeping::Timestamps

#data_breakdown_for_chartkick_recent

Methods included from Housekeeping::Users

#set_created_by_id, #set_updated_by_id

Methods inherited from ApplicationRecord

transaction_with_retry

Instance Attribute Details

#api_access_token ⇒ String?

Returns The token is not intended to be private. Generating one is akin to indicating that your project's data are public, and they will be exposed in the general API to all. The token is primarily for tracking “anonymous” use.

Returns:

  • (String, nil) —

    The token is not intended to be private. Generating one is akin to indicating that your project's data are public, and they will be exposed in the general API to all. The token is primarily for tracking “anonymous” use.



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# File 'app/models/project.rb', line 17

class Project < ApplicationRecord
  include Housekeeping::Users
  include Housekeeping::Timestamps
  include Housekeeping::AssociationHelpers
  include Project::Preferences

  attr_accessor :without_root_taxon_name
  attr_accessor :clear_api_access_token
  attr_accessor :set_new_api_access_token
  
  # ORDER MATTERS
  # Used in `nuke` order (not available in production UI), but 
  # ultimately also for dumping records.
  #
  # The intent is to use  `delete_all` for speed. This means
  # that callbacks are *not* fired (associated destroys).
  MANIFEST = %w{
     Observation  
     CitationTopic
     Citation
     Note   
     CharacterState     
     Protocol
     AlternateValue
     DataAttribute
     TaggedSectionKeyword
     Tag
     Confidence
     Role
     SledImage
     Label
     Attribution
     DwcOccurrence
     ProtocolRelationship
     SqedDepiction
     Depiction
     Documentation
     Document
     CollectionObjectObservation
     DerivedCollectionObject
     PinboardItem
     AssertedDistribution
     BiocurationClassification
     BiologicalRelationshipType
     BiologicalAssociationsBiologicalAssociationsGraph
     BiologicalAssociation
     BiologicalRelationship
     BiologicalAssociationsGraph
     CollectionProfile
     ContainerItem
     Container
     PublicContent
     Content
     Georeference
     Identifier
     LoanItem
     Loan
     OtuPageLayoutSection
     OtuPageLayout
     ProjectSource
     TaxonDetermination
     TypeMaterial
     CollectingEvent
     RangedLotCategory
     Image
     CommonName
     TaxonNameClassification
     TaxonNameRelationship
     ControlledVocabularyTerm
     OriginRelationship
     Sequence
     SequenceRelationship
     Extract
     GeneAttribute
     ObservationMatrixColumn 
     ObservationMatrixColumnItem
     ObservationMatrixRow
     ObservationMatrixRowItem
     ObservationMatrix
     CollectionObject
     Otu
     TaxonName
     Descriptor
     ProjectMember
     Download
     DatasetRecordField
     DatasetRecord
     ImportDataset
    }
  
  has_many :project_members, dependent: :restrict_with_error

  has_many :users, through: :project_members
  has_many :project_sources, dependent: :restrict_with_error
  has_many :sources, through: :project_sources

  before_save :generate_api_access_token, if: :set_new_api_access_token
  before_save :destroy_api_access_token, if: -> { self.clear_api_access_token}
  after_create :create_root_taxon_name, unless: -> {self.without_root_taxon_name == true}

  validates_presence_of :name
  validates_uniqueness_of :name

  def project_administrators
    users.joins(:project_members).where(project_members: {is_project_administrator: true})
  end

  def is_editable?(user)
    user = User.find(user) if !user.kind_of?(User)
    return true if user.is_administrator? || project_administrators.include?(user)
    false
  end

  # @return [Hash]
  #   for each model in manifest list its annotators
  def annotators
    known = ApplicationRecord.subclasses.select {|a| a.column_names.include?('project_id')}.map(&:name)

    known.each do |k|
      next if k.safe_constantize.table_name == 'test_classes' # TODO: a kludge to ignore stubbed classes in testing
      if !MANIFEST.include?(k)
        raise "#{k} has not been added to annotators method ."
      end
    end

    h = {}

    begin
      MANIFEST.each do |o|
        klass = o.safe_constantize
        
      end



      true
    rescue => e
      raise e
    end
  end

  

  # !! This is not production ready.
  # @return [Boolean]
  #   based on whether the project has successfully been deleted.  Can also raise on detected problems with configuration.
  def nuke
    known = ApplicationRecord.subclasses.select {|a| a.column_names.include?('project_id')}.map(&:name)

    known.each do |k|
      next if k.constantize.table_name == 'test_classes' # TODO: a kludge to ignore stubbed classes in testing
      if !MANIFEST.include?(k)
        raise "#{k} has not been added to #nuke order."
      end
    end

    begin
      MANIFEST.each do |o|
        klass = o.constantize
        klass.where(project_id: id).delete_all
      end

      self.destroy

      true
    rescue => e
      raise e
    end
  end

  


  # TODO: boot load checks
  def root_taxon_name
    # Calling TaxonName is a hack to load the required has_many into Project,
    # "has_many :taxon_names" is invoked through TaxonName within Housekeeping::Project
    # Within TaxonName closure_tree (appears to?) require a database connection. 

    # Since we shouldn't (can't?) initiate a connection prior to a require_dependency
    # we simply load TaxonName for the first time here.
    TaxonName.tap {} # TODO: move to require_dependency?
    TaxonNameRelationship.tap {}
    taxon_names.root
  end

  def self.find_for_autocomplete(params)
    where('name LIKE ?', "#{params[:term]}%")
  end

  protected

  def create_root_taxon_name
    p = Protonym.stub_root(project_id: id, by: creator)
    p.save!
    p
  end

  # @return [String]
  def generate_api_access_token
    self.api_access_token = Utilities::RandomToken.generate
  end

  def destroy_api_access_token
    self.api_access_token = nil 
  end

end

#clear_api_access_token ⇒ Object

Returns the value of attribute clear_api_access_token.



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# File 'app/models/project.rb', line 24

def clear_api_access_token
  @clear_api_access_token
end

#name ⇒ String

Returns The name of the project.

Returns:

  • (String) —

    The name of the project



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# File 'app/models/project.rb', line 17

class Project < ApplicationRecord
  include Housekeeping::Users
  include Housekeeping::Timestamps
  include Housekeeping::AssociationHelpers
  include Project::Preferences

  attr_accessor :without_root_taxon_name
  attr_accessor :clear_api_access_token
  attr_accessor :set_new_api_access_token
  
  # ORDER MATTERS
  # Used in `nuke` order (not available in production UI), but 
  # ultimately also for dumping records.
  #
  # The intent is to use  `delete_all` for speed. This means
  # that callbacks are *not* fired (associated destroys).
  MANIFEST = %w{
     Observation  
     CitationTopic
     Citation
     Note   
     CharacterState     
     Protocol
     AlternateValue
     DataAttribute
     TaggedSectionKeyword
     Tag
     Confidence
     Role
     SledImage
     Label
     Attribution
     DwcOccurrence
     ProtocolRelationship
     SqedDepiction
     Depiction
     Documentation
     Document
     CollectionObjectObservation
     DerivedCollectionObject
     PinboardItem
     AssertedDistribution
     BiocurationClassification
     BiologicalRelationshipType
     BiologicalAssociationsBiologicalAssociationsGraph
     BiologicalAssociation
     BiologicalRelationship
     BiologicalAssociationsGraph
     CollectionProfile
     ContainerItem
     Container
     PublicContent
     Content
     Georeference
     Identifier
     LoanItem
     Loan
     OtuPageLayoutSection
     OtuPageLayout
     ProjectSource
     TaxonDetermination
     TypeMaterial
     CollectingEvent
     RangedLotCategory
     Image
     CommonName
     TaxonNameClassification
     TaxonNameRelationship
     ControlledVocabularyTerm
     OriginRelationship
     Sequence
     SequenceRelationship
     Extract
     GeneAttribute
     ObservationMatrixColumn 
     ObservationMatrixColumnItem
     ObservationMatrixRow
     ObservationMatrixRowItem
     ObservationMatrix
     CollectionObject
     Otu
     TaxonName
     Descriptor
     ProjectMember
     Download
     DatasetRecordField
     DatasetRecord
     ImportDataset
    }
  
  has_many :project_members, dependent: :restrict_with_error

  has_many :users, through: :project_members
  has_many :project_sources, dependent: :restrict_with_error
  has_many :sources, through: :project_sources

  before_save :generate_api_access_token, if: :set_new_api_access_token
  before_save :destroy_api_access_token, if: -> { self.clear_api_access_token}
  after_create :create_root_taxon_name, unless: -> {self.without_root_taxon_name == true}

  validates_presence_of :name
  validates_uniqueness_of :name

  def project_administrators
    users.joins(:project_members).where(project_members: {is_project_administrator: true})
  end

  def is_editable?(user)
    user = User.find(user) if !user.kind_of?(User)
    return true if user.is_administrator? || project_administrators.include?(user)
    false
  end

  # @return [Hash]
  #   for each model in manifest list its annotators
  def annotators
    known = ApplicationRecord.subclasses.select {|a| a.column_names.include?('project_id')}.map(&:name)

    known.each do |k|
      next if k.safe_constantize.table_name == 'test_classes' # TODO: a kludge to ignore stubbed classes in testing
      if !MANIFEST.include?(k)
        raise "#{k} has not been added to annotators method ."
      end
    end

    h = {}

    begin
      MANIFEST.each do |o|
        klass = o.safe_constantize
        
      end



      true
    rescue => e
      raise e
    end
  end

  

  # !! This is not production ready.
  # @return [Boolean]
  #   based on whether the project has successfully been deleted.  Can also raise on detected problems with configuration.
  def nuke
    known = ApplicationRecord.subclasses.select {|a| a.column_names.include?('project_id')}.map(&:name)

    known.each do |k|
      next if k.constantize.table_name == 'test_classes' # TODO: a kludge to ignore stubbed classes in testing
      if !MANIFEST.include?(k)
        raise "#{k} has not been added to #nuke order."
      end
    end

    begin
      MANIFEST.each do |o|
        klass = o.constantize
        klass.where(project_id: id).delete_all
      end

      self.destroy

      true
    rescue => e
      raise e
    end
  end

  


  # TODO: boot load checks
  def root_taxon_name
    # Calling TaxonName is a hack to load the required has_many into Project,
    # "has_many :taxon_names" is invoked through TaxonName within Housekeeping::Project
    # Within TaxonName closure_tree (appears to?) require a database connection. 

    # Since we shouldn't (can't?) initiate a connection prior to a require_dependency
    # we simply load TaxonName for the first time here.
    TaxonName.tap {} # TODO: move to require_dependency?
    TaxonNameRelationship.tap {}
    taxon_names.root
  end

  def self.find_for_autocomplete(params)
    where('name LIKE ?', "#{params[:term]}%")
  end

  protected

  def create_root_taxon_name
    p = Protonym.stub_root(project_id: id, by: creator)
    p.save!
    p
  end

  # @return [String]
  def generate_api_access_token
    self.api_access_token = Utilities::RandomToken.generate
  end

  def destroy_api_access_token
    self.api_access_token = nil 
  end

end

#preferences ⇒ Hash

Returns Settings for the project (for all users).

Returns:

  • (Hash) —

    Settings for the project (for all users)



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# File 'app/models/project.rb', line 17

class Project < ApplicationRecord
  include Housekeeping::Users
  include Housekeeping::Timestamps
  include Housekeeping::AssociationHelpers
  include Project::Preferences

  attr_accessor :without_root_taxon_name
  attr_accessor :clear_api_access_token
  attr_accessor :set_new_api_access_token
  
  # ORDER MATTERS
  # Used in `nuke` order (not available in production UI), but 
  # ultimately also for dumping records.
  #
  # The intent is to use  `delete_all` for speed. This means
  # that callbacks are *not* fired (associated destroys).
  MANIFEST = %w{
     Observation  
     CitationTopic
     Citation
     Note   
     CharacterState     
     Protocol
     AlternateValue
     DataAttribute
     TaggedSectionKeyword
     Tag
     Confidence
     Role
     SledImage
     Label
     Attribution
     DwcOccurrence
     ProtocolRelationship
     SqedDepiction
     Depiction
     Documentation
     Document
     CollectionObjectObservation
     DerivedCollectionObject
     PinboardItem
     AssertedDistribution
     BiocurationClassification
     BiologicalRelationshipType
     BiologicalAssociationsBiologicalAssociationsGraph
     BiologicalAssociation
     BiologicalRelationship
     BiologicalAssociationsGraph
     CollectionProfile
     ContainerItem
     Container
     PublicContent
     Content
     Georeference
     Identifier
     LoanItem
     Loan
     OtuPageLayoutSection
     OtuPageLayout
     ProjectSource
     TaxonDetermination
     TypeMaterial
     CollectingEvent
     RangedLotCategory
     Image
     CommonName
     TaxonNameClassification
     TaxonNameRelationship
     ControlledVocabularyTerm
     OriginRelationship
     Sequence
     SequenceRelationship
     Extract
     GeneAttribute
     ObservationMatrixColumn 
     ObservationMatrixColumnItem
     ObservationMatrixRow
     ObservationMatrixRowItem
     ObservationMatrix
     CollectionObject
     Otu
     TaxonName
     Descriptor
     ProjectMember
     Download
     DatasetRecordField
     DatasetRecord
     ImportDataset
    }
  
  has_many :project_members, dependent: :restrict_with_error

  has_many :users, through: :project_members
  has_many :project_sources, dependent: :restrict_with_error
  has_many :sources, through: :project_sources

  before_save :generate_api_access_token, if: :set_new_api_access_token
  before_save :destroy_api_access_token, if: -> { self.clear_api_access_token}
  after_create :create_root_taxon_name, unless: -> {self.without_root_taxon_name == true}

  validates_presence_of :name
  validates_uniqueness_of :name

  def project_administrators
    users.joins(:project_members).where(project_members: {is_project_administrator: true})
  end

  def is_editable?(user)
    user = User.find(user) if !user.kind_of?(User)
    return true if user.is_administrator? || project_administrators.include?(user)
    false
  end

  # @return [Hash]
  #   for each model in manifest list its annotators
  def annotators
    known = ApplicationRecord.subclasses.select {|a| a.column_names.include?('project_id')}.map(&:name)

    known.each do |k|
      next if k.safe_constantize.table_name == 'test_classes' # TODO: a kludge to ignore stubbed classes in testing
      if !MANIFEST.include?(k)
        raise "#{k} has not been added to annotators method ."
      end
    end

    h = {}

    begin
      MANIFEST.each do |o|
        klass = o.safe_constantize
        
      end



      true
    rescue => e
      raise e
    end
  end

  

  # !! This is not production ready.
  # @return [Boolean]
  #   based on whether the project has successfully been deleted.  Can also raise on detected problems with configuration.
  def nuke
    known = ApplicationRecord.subclasses.select {|a| a.column_names.include?('project_id')}.map(&:name)

    known.each do |k|
      next if k.constantize.table_name == 'test_classes' # TODO: a kludge to ignore stubbed classes in testing
      if !MANIFEST.include?(k)
        raise "#{k} has not been added to #nuke order."
      end
    end

    begin
      MANIFEST.each do |o|
        klass = o.constantize
        klass.where(project_id: id).delete_all
      end

      self.destroy

      true
    rescue => e
      raise e
    end
  end

  


  # TODO: boot load checks
  def root_taxon_name
    # Calling TaxonName is a hack to load the required has_many into Project,
    # "has_many :taxon_names" is invoked through TaxonName within Housekeeping::Project
    # Within TaxonName closure_tree (appears to?) require a database connection. 

    # Since we shouldn't (can't?) initiate a connection prior to a require_dependency
    # we simply load TaxonName for the first time here.
    TaxonName.tap {} # TODO: move to require_dependency?
    TaxonNameRelationship.tap {}
    taxon_names.root
  end

  def self.find_for_autocomplete(params)
    where('name LIKE ?', "#{params[:term]}%")
  end

  protected

  def create_root_taxon_name
    p = Protonym.stub_root(project_id: id, by: creator)
    p.save!
    p
  end

  # @return [String]
  def generate_api_access_token
    self.api_access_token = Utilities::RandomToken.generate
  end

  def destroy_api_access_token
    self.api_access_token = nil 
  end

end

#set_new_api_access_token ⇒ Object

Returns the value of attribute set_new_api_access_token.



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# File 'app/models/project.rb', line 25

def set_new_api_access_token
  @set_new_api_access_token
end

#without_root_taxon_name ⇒ Object

Returns the value of attribute without_root_taxon_name.



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# File 'app/models/project.rb', line 23

def without_root_taxon_name
  @without_root_taxon_name
end

Class Method Details

.find_for_autocomplete(params) ⇒ Object 



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# File 'app/models/project.rb', line 203

def self.find_for_autocomplete(params)
  where('name LIKE ?', "#{params[:term]}%")
end

Instance Method Details

#annotators ⇒ Hash

Returns for each model in manifest list its annotators.

Returns:

  • (Hash) —

    for each model in manifest list its annotators



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# File 'app/models/project.rb', line 132

def annotators
  known = ApplicationRecord.subclasses.select {|a| a.column_names.include?('project_id')}.map(&:name)

  known.each do |k|
    next if k.safe_constantize.table_name == 'test_classes' # TODO: a kludge to ignore stubbed classes in testing
    if !MANIFEST.include?(k)
      raise "#{k} has not been added to annotators method ."
    end
  end

  h = {}

  begin
    MANIFEST.each do |o|
      klass = o.safe_constantize
      
    end



    true
  rescue => e
    raise e
  end
end

#create_root_taxon_name ⇒ Object (protected) 



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# File 'app/models/project.rb', line 209

def create_root_taxon_name
  p = Protonym.stub_root(project_id: id, by: creator)
  p.save!
  p
end

#destroy_api_access_token ⇒ Object (protected) 



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# File 'app/models/project.rb', line 220

def destroy_api_access_token
  self.api_access_token = nil 
end

#generate_api_access_token ⇒ String (protected)

Returns:

  • (String) 


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# File 'app/models/project.rb', line 216

def generate_api_access_token
  self.api_access_token = Utilities::RandomToken.generate
end

#is_editable?(user) ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'app/models/project.rb', line 124

def is_editable?(user)
  user = User.find(user) if !user.kind_of?(User)
  return true if user.is_administrator? || project_administrators.include?(user)
  false
end

#nuke ⇒ Boolean

!! This is not production ready.

Returns:

  • (Boolean) —

    based on whether the project has successfully been deleted. Can also raise on detected problems with configuration.



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# File 'app/models/project.rb', line 163

def nuke
  known = ApplicationRecord.subclasses.select {|a| a.column_names.include?('project_id')}.map(&:name)

  known.each do |k|
    next if k.constantize.table_name == 'test_classes' # TODO: a kludge to ignore stubbed classes in testing
    if !MANIFEST.include?(k)
      raise "#{k} has not been added to #nuke order."
    end
  end

  begin
    MANIFEST.each do |o|
      klass = o.constantize
      klass.where(project_id: id).delete_all
    end

    self.destroy

    true
  rescue => e
    raise e
  end
end

#project_administrators ⇒ Object 



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# File 'app/models/project.rb', line 120

def project_administrators
  users.joins(:project_members).where(project_members: {is_project_administrator: true})
end

#root_taxon_name ⇒ Object

TODO: boot load checks



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# File 'app/models/project.rb', line 191

def root_taxon_name
  # Calling TaxonName is a hack to load the required has_many into Project,
  # "has_many :taxon_names" is invoked through TaxonName within Housekeeping::Project
  # Within TaxonName closure_tree (appears to?) require a database connection. 

  # Since we shouldn't (can't?) initiate a connection prior to a require_dependency
  # we simply load TaxonName for the first time here.
  TaxonName.tap {} # TODO: move to require_dependency?
  TaxonNameRelationship.tap {}
  taxon_names.root
end