Public

Gets the generic Xref type for an AnnotatedObject class

getAliasClassType

getXrefClassType

Finds an Annotations with a topic that has an MI or label equal to the value
provided

findAnnotationByTopicMiOrLabel

getParameterizedType

Trims a shortlabel if it is too long to be inserted in the database.

prepareShortLabel

Retrieve the xrefs from an annotated object that comply with the filter.

searchXrefs

Method to compare Annotation, Xref and Aliases collections

areCollectionEqual

containSameAliases

containSameAnnotations

Checks if two given annotated objects contain the same set of annotations, xrefs
and aliases

containSameCollections

containSameXrefs

Check if the passed annotated objects contain the same set of filtered Xrefs.

containTheSameXrefs

Creates unique strings for Annotations,Xrefs and aliases.

createUniqueString

Find the parent object for an IntactObject.

findParent

Checks if the parent collection that contains children of the child type passed
is initialized. Can 

isChildrenInitialized

isCvTopicPublic

Check if the object state is "new" or "managed". This check is useful in those
cases where we need t

isNewOrManaged

Removes a child from an annotated object, without knowing the exact type (ie.
remove a range from a 

removeChild

Search for all Xrefs having Xref with the given CvDatabase MI.

searchXrefsByDatabase

Search for all Xrefs having Xref with the given CvXrefQualifier.

searchXrefsByQualifier

Running tasks concurrently on multiple threads

An "abstract" representation of a file system entity identified by a pathname.
The pathname may be a

java.io.File

Allows reading from and writing to a file in a random-access manner. This is
different from the uni-

java.io.RandomAccessFile

An ordered collection (also known as a sequence). The user of this interface has
precise control ove

java.util.List

This is the central class in the log4j package. Most logging operations, except
configuration, are d

org.apache.log4j.Logger

The LoggerFactory is a utility class producing Loggers for various logging APIs,
most notably for lo

org.slf4j.LoggerFactory

Class that models an arbitrary location in a Resource.Typically used to track
the location of proble

org.springframework.beans.factory.parsing.Location

compareTo

putExtra

setContentView

/**
     * Populates the identifier property of the CvObject, by getting the value from the primaryId of
     * the identity cross reference. PSI MI identity xrefs take precedence, but if it does not exist,
     * the first identity found is used. If no identity cross references are found for the object, a
     * new identifier will be created using the <code>local_cv_seq</code> sequence. If the parameter
     * <code>createXrefIfLocalCv</code> is true, a cross reference with the new identifier will be created,
     * which points to the intact database.
     * @param cvObject The CvObject to populate
     * @param createXrefIfLocalCv If true, a new xref will be created if the CvObject didn't have one already,
     * with the newly generated identifier.
     *
     * @since 1.9.0
     */

// try to get first the mi identity. If none is found, just use the first identity

// no identities found in object. Create a local identity if createXrefIfLocalCv.

"Problem generating sequence for a CvObject without identifier: "

"Cannot create a local identity xref, as the \"identity\" CvXrefQualifier ("

") must exist in the database if a CvObject without identity is persisted. This is necessary "

"to create a new generated identity for this object: "

How to use searchXrefsByQualifiermethodin uk.ac.ebi.intact.model.util.AnnotatedObjectUtils

Best Java code snippets using uk.ac.ebi.intact.model.util.AnnotatedObjectUtils.searchXrefsByQualifier (Showing top 2 results out of 315)

How to use
searchXrefsByQualifier
method
in
uk.ac.ebi.intact.model.util.AnnotatedObjectUtils