Serialized Form (molgenis-omx-core 1.3.0 API)

Package org.molgenis

Class org.molgenis.JDBCMetaDatabase extends Model implements Serializable

serialVersionUID:

1L

Class org.molgenis.MolgenisOptions extends java.lang.Object implements Serializable

serialVersionUID:: 1L

Serialized Fields

molgenis_properties
```
java.lang.String molgenis_properties
```
model_database
```
java.util.ArrayList<E> model_database
```

import_model_database

java.util.ArrayList<E> import_model_database

output_dir
```
java.lang.String output_dir
```
output_src
```
java.lang.String output_src
```
output_hand
```
java.lang.String output_hand
```
output_sql
```
java.lang.String output_sql
```
output_doc
```
java.lang.String output_doc
```
output_web
```
java.lang.String output_web
```
decorator_overriders
```
java.lang.String decorator_overriders
```
db_filepath
```
java.lang.String db_filepath
```

object_relational_mapping

java.lang.String object_relational_mapping

generate_persistence
```
boolean generate_persistence
```
generate_jpa
```
boolean generate_jpa
```
jpa_use_sequence
```
boolean jpa_use_sequence
```
generate_db
```
boolean generate_db
```
exclude_system
```
boolean exclude_system
```
generate_doc
```
boolean generate_doc
```
generate_entityio
```
boolean generate_entityio
```
generate_tests
```
boolean generate_tests
```
generate_model
```
boolean generate_model
```
delete_generated_folder
```
boolean delete_generated_folder
```
authorizable
```
java.util.ArrayList<E> authorizable
```
disable_decorators
```
boolean disable_decorators
```
block_webspiders
```
boolean block_webspiders
```
generate_jpa_repository_source
```
boolean generate_jpa_repository_source
```
path
```
java.lang.String path
```

Package org.molgenis.omx.auth
- Class org.molgenis.omx.auth.GroupAuthority extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - role
```
java.lang.String role
```
    - id
```
java.lang.Integer id
```
    - molgenisGroup
```
MolgenisGroup molgenisGroup
```
- Class org.molgenis.omx.auth.Institute extends Characteristic implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - address
```
java.lang.String address
```
    - phone
```
java.lang.String phone
```
    - email
```
java.lang.String email
```
    - fax
```
java.lang.String fax
```
    - tollFreePhone
```
java.lang.String tollFreePhone
```
    - city
```
java.lang.String city
```
    - country
```
java.lang.String country
```
    - name
```
java.lang.String name
```
- Class org.molgenis.omx.auth.MolgenisGroup extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - name
```
java.lang.String name
```
    - active
```
java.lang.Boolean active
```
- Class org.molgenis.omx.auth.MolgenisGroupMember extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - molgenisUser
```
MolgenisUser molgenisUser
```
    - molgenisGroup
```
MolgenisGroup molgenisGroup
```
- Class org.molgenis.omx.auth.MolgenisUser extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - username
```
java.lang.String username
```
    - password_
```
java.lang.String password_
```
    - activationCode
```
java.lang.String activationCode
```
    - active
```
java.lang.Boolean active
```
    - superuser
```
java.lang.Boolean superuser
```
    - firstName
```
java.lang.String firstName
```
    - middleNames
```
java.lang.String middleNames
```
    - lastName
```
java.lang.String lastName
```
    - title
```
java.lang.String title
```
    - affiliation
```
java.lang.String affiliation
```
    - department
```
java.lang.String department
```
    - role
```
java.lang.String role
```
    - address
```
java.lang.String address
```
    - phone
```
java.lang.String phone
```
    - email
```
java.lang.String email
```
    - fax
```
java.lang.String fax
```
    - tollFreePhone
```
java.lang.String tollFreePhone
```
    - city
```
java.lang.String city
```
    - country
```
java.lang.String country
```
    - changePassword
```
java.lang.Boolean changePassword
```
- Class org.molgenis.omx.auth.Person extends Characteristic implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - address
```
java.lang.String address
```
    - phone
```
java.lang.String phone
```
    - email
```
java.lang.String email
```
    - fax
```
java.lang.String fax
```
    - tollFreePhone
```
java.lang.String tollFreePhone
```
    - city
```
java.lang.String city
```
    - country
```
java.lang.String country
```
    - firstName
```
java.lang.String firstName
```
    - midInitials
```
java.lang.String midInitials
```
    - lastName
```
java.lang.String lastName
```
    - title
```
java.lang.String title
```
    - affiliation
```
Institute affiliation
```
    - department
```
java.lang.String department
```
    - roles
```
PersonRole roles
```
- Class org.molgenis.omx.auth.PersonRole extends OntologyTerm implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.molgenis.omx.auth.UserAuthority extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - role
```
java.lang.String role
```
    - id
```
java.lang.Integer id
```
    - molgenisUser
```
MolgenisUser molgenisUser
```
Package org.molgenis.omx.converters
- Class org.molgenis.omx.converters.ValueConverterException extends java.lang.Exception implements Serializable
  
  serialVersionUID:
  
  1L
Package org.molgenis.omx.core
- Class org.molgenis.omx.core.FreemarkerTemplate extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - name
```
java.lang.String name
```
    - value
```
java.lang.String value
```
- Class org.molgenis.omx.core.MolgenisEntity extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - name
```
java.lang.String name
```
    - type_
```
java.lang.String type_
```
    - className
```
java.lang.String className
```
- Class org.molgenis.omx.core.RuntimeProperty extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - identifier
```
java.lang.String identifier
```
    - name
```
java.lang.String name
```
    - value
```
java.lang.String value
```
Package org.molgenis.omx.observ
- Class org.molgenis.omx.observ.Category extends Characteristic implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - observableFeature
```
ObservableFeature observableFeature
```
    - valueCode
```
java.lang.String valueCode
```
    - definition
```
OntologyTerm definition
```
    - isMissing
```
java.lang.Boolean isMissing
```
- Class org.molgenis.omx.observ.Characteristic extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - identifier
```
java.lang.String identifier
```
    - name
```
java.lang.String name
```
    - __Type
```
java.lang.String __Type
```
    - __Type_label
```
java.lang.String __Type_label
```
    - description
```
java.lang.String description
```
    - valueMrefValueCollection
```
java.util.Collection<E> valueMrefValueCollection
```
- Class org.molgenis.omx.observ.DataSet extends Characteristic implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - protocolUsed
```
Protocol protocolUsed
```
    - startTime
```
java.util.Date startTime
```
    - endTime
```
java.util.Date endTime
```
- Class org.molgenis.omx.observ.ObservableFeature extends Characteristic implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - unit
```
OntologyTerm unit
```
    - definitions
```
java.util.List<E> definitions
```
    - dataType
```
java.lang.String dataType
```
    - dataType_label
```
java.lang.String dataType_label
```
    - temporal
```
java.lang.Boolean temporal
```
    - minRange
```
java.lang.Long minRange
```
    - maxRange
```
java.lang.Long maxRange
```
    - featuresProtocolCollection
```
java.util.Collection<E> featuresProtocolCollection
```
    - requiredFeaturesProtocolCollection
```
java.util.Collection<E> requiredFeaturesProtocolCollection
```
- Class org.molgenis.omx.observ.ObservableFeature_Definitions extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - autoid
```
java.lang.Integer autoid
```
    - definitions
```
OntologyTerm definitions
```
    - observableFeature
```
ObservableFeature observableFeature
```
- Class org.molgenis.omx.observ.ObservationSet extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - identifier
```
java.lang.String identifier
```
    - partOfDataSet
```
DataSet partOfDataSet
```
    - time
```
java.util.Date time
```
- Class org.molgenis.omx.observ.ObservationTarget extends Characteristic implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.molgenis.omx.observ.ObservedValue extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - observationSet
```
ObservationSet observationSet
```
    - feature
```
ObservableFeature feature
```
    - value
```
Value value
```
- Class org.molgenis.omx.observ.Protocol extends Characteristic implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - protocolType
```
OntologyTerm protocolType
```
    - subprotocols
```
java.util.List<E> subprotocols
```
    - features
```
java.util.List<E> features
```
    - requiredFeatures
```
java.util.List<E> requiredFeatures
```
    - root
```
java.lang.Boolean root
```
    - active
```
java.lang.Boolean active
```
    - subprotocolsProtocolCollection
```
java.util.Collection<E> subprotocolsProtocolCollection
```
- Class org.molgenis.omx.observ.Protocol_Features extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - autoid
```
java.lang.Integer autoid
```
    - features
```
ObservableFeature features
```
    - protocol
```
Protocol protocol
```
- Class org.molgenis.omx.observ.Protocol_RequiredFeatures extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - autoid
```
java.lang.Integer autoid
```
    - requiredFeatures
```
ObservableFeature requiredFeatures
```
    - protocol
```
Protocol protocol
```
- Class org.molgenis.omx.observ.Protocol_Subprotocols extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - autoid
```
java.lang.Integer autoid
```
    - subprotocols
```
Protocol subprotocols
```
    - protocol
```
Protocol protocol
```
Package org.molgenis.omx.observ.target
- Class org.molgenis.omx.observ.target.Accession extends OntologyTerm implements Serializable
  
  serialVersionUID:
  
  1L
- Class org.molgenis.omx.observ.target.Individual extends ObservationTarget implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - mother
```
Individual mother
```
    - father
```
Individual father
```
    - individualsPanelCollection
```
java.util.Collection<E> individualsPanelCollection
```
- Class org.molgenis.omx.observ.target.Ontology extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - identifier
```
java.lang.String identifier
```
    - name
```
java.lang.String name
```
    - ontologyAccession
```
java.lang.String ontologyAccession
```
    - ontologyURI
```
java.lang.String ontologyURI
```
- Class org.molgenis.omx.observ.target.OntologyTerm extends Characteristic implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - ontology
```
Ontology ontology
```
    - termAccession
```
java.lang.String termAccession
```
    - definition
```
java.lang.String definition
```
    - definitionsObservableFeatureCollection
```
java.util.Collection<E> definitionsObservableFeatureCollection
```
- Class org.molgenis.omx.observ.target.Panel extends ObservationTarget implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - panelType
```
OntologyTerm panelType
```
    - numberOfIndividuals
```
java.lang.Integer numberOfIndividuals
```
    - species
```
Species species
```
    - individuals
```
java.util.List<E> individuals
```
- Class org.molgenis.omx.observ.target.Panel_Individuals extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - autoid
```
java.lang.Integer autoid
```
    - individuals
```
Individual individuals
```
    - panel
```
Panel panel
```
- Class org.molgenis.omx.observ.target.PanelSource extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - currentPanel
```
Panel currentPanel
```
    - sourcePanel
```
Panel sourcePanel
```
    - numberOfIndividuals
```
java.lang.Integer numberOfIndividuals
```
    - selectionCriteria
```
java.lang.String selectionCriteria
```
- Class org.molgenis.omx.observ.target.Species extends OntologyTerm implements Serializable
  
  serialVersionUID:
  
  1L
Package org.molgenis.omx.observ.value
- Class org.molgenis.omx.observ.value.BoolValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.Boolean value
```
- Class org.molgenis.omx.observ.value.CategoricalValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
Category value
```
- Class org.molgenis.omx.observ.value.DateTimeValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.util.Date value
```
- Class org.molgenis.omx.observ.value.DateValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.util.Date value
```
- Class org.molgenis.omx.observ.value.DecimalValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.Double value
```
- Class org.molgenis.omx.observ.value.EmailValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.String value
```
- Class org.molgenis.omx.observ.value.HtmlValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.String value
```
- Class org.molgenis.omx.observ.value.HyperlinkValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.String value
```
- Class org.molgenis.omx.observ.value.IntValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.Integer value
```
- Class org.molgenis.omx.observ.value.LongValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.Long value
```
- Class org.molgenis.omx.observ.value.MrefValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.util.List<E> value
```
- Class org.molgenis.omx.observ.value.MrefValue_Value extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - autoid
```
java.lang.Integer autoid
```
    - value
```
Characteristic value
```
    - mrefValue
```
MrefValue mrefValue
```
- Class org.molgenis.omx.observ.value.StringValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.String value
```
- Class org.molgenis.omx.observ.value.TextValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
java.lang.String value
```
- Class org.molgenis.omx.observ.value.Value extends AbstractEntity implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - id
```
java.lang.Integer id
```
    - __Type
```
java.lang.String __Type
```
    - __Type_label
```
java.lang.String __Type_label
```
- Class org.molgenis.omx.observ.value.XrefValue extends Value implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - value
```
Characteristic value
```

Serialized Form

Package org.molgenis

Class org.molgenis.JDBCMetaDatabase extends Model implements Serializable

Class org.molgenis.MolgenisOptions extends java.lang.Object implements Serializable

Serialized Fields

molgenis_properties

model_database

import_model_database

output_dir

output_src

output_hand

output_sql

output_doc

output_web

decorator_overriders

db_filepath

object_relational_mapping

generate_persistence

generate_jpa

jpa_use_sequence

generate_db

exclude_system

generate_doc

generate_entityio

generate_tests

generate_model

delete_generated_folder

authorizable

disable_decorators

block_webspiders

generate_jpa_repository_source

path

Package org.molgenis.omx.auth

Class org.molgenis.omx.auth.GroupAuthority extends AbstractEntity implements Serializable

Serialized Fields

role

id

molgenisGroup

Class org.molgenis.omx.auth.Institute extends Characteristic implements Serializable

Serialized Fields

address

phone

email

fax

tollFreePhone

city

country

name

Class org.molgenis.omx.auth.MolgenisGroup extends AbstractEntity implements Serializable

Serialized Fields

id

name

active

Class org.molgenis.omx.auth.MolgenisGroupMember extends AbstractEntity implements Serializable

Serialized Fields

id

molgenisUser

molgenisGroup

Class org.molgenis.omx.auth.MolgenisUser extends AbstractEntity implements Serializable

Serialized Fields

id

username

password_

activationCode

active

superuser

firstName

middleNames

lastName

title

affiliation

department

role

address

phone

email

fax

tollFreePhone

city

country