本文整理了Java中uk.ac.ebi.intact.model.Interaction.getAc()方法的一些代码示例，展示了Interaction.getAc()的具体用法。这些代码示例主要来源于Github/Stackoverflow/Maven等平台，是从一些精选项目中提取出来的代码，具有较强的参考意义，能在一定程度帮忙到你。Interaction.getAc()方法的具体详情如下：
包路径：uk.ac.ebi.intact.model.Interaction
类名称：Interaction
方法名：getAc
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代码示例来源：origin: uk.ac.ebi.intact.dataexchange.psimi/intact-psimitab-converters
public Collection<BinaryInteraction> convert( Collection<Interaction> interactions ) {
if ( interactions == null ) {
throw new IllegalArgumentException( "Interactions must not be null" );
}
if (expansionStrategy == null) {
throw new NullPointerException("No expansion strategy defined");
}
Collection<BinaryInteraction> result = new ArrayList<BinaryInteraction>(interactions.size());
for ( Interaction interaction : interactions ) {
Collection<BinaryInteraction> expandedInteractions = null;
try {
expandedInteractions = expansionStrategy.expand(interaction);
} catch ( NotExpandableInteractionException e ) {
log.warn( "Interaction " + interaction.getAc() + " could not be expanded. Skipping." );
}
if( expandedInteractions != null ) {
result.addAll(expandedInteractions);
}
}
if ( ! result.isEmpty() ) {
result = doPostProcessing( result );
}
return result;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core
/**
* Gets the Interactor Identifiers for that interaction
*
* @since 1.7.2
*/
public static List<String> getInteractorPrimaryIDs(Interaction interaction) {
final Collection<Component> components = interaction.getComponents();
List<String> ids = new ArrayList<String>(components.size());
for (Component component : components) {
Interactor interactor = component.getInteractor();
final Collection<InteractorXref> idXrefs = XrefUtils.getIdentityXrefs(interactor);
if (idXrefs.size() > 0) {
final Iterator<InteractorXref> iterator = idXrefs.iterator();
ids.add(iterator.next().getPrimaryId());
if (log.isDebugEnabled()) {
if (iterator.hasNext()) {
log.debug("Interaction contains interactor with more than one identities. Interaction: " + interaction.getShortLabel() + "(" + interaction.getAc() + ") " +
" - Xrefs: " + idXrefs);
}
}
}
}
return ids;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core-readonly
/**
* Gets the Interactor Identifiers for that interaction
*
* @since 1.7.2
*/
public static List<String> getInteractorPrimaryIDs(Interaction interaction) {
final Collection<Component> components = interaction.getComponents();
List<String> ids = new ArrayList<String>(components.size());
for (Component component : components) {
Interactor interactor = component.getInteractor();
final Collection<InteractorXref> idXrefs = XrefUtils.getIdentityXrefs(interactor);
if (idXrefs.size() > 0) {
final Iterator<InteractorXref> iterator = idXrefs.iterator();
ids.add(iterator.next().getPrimaryId());
if (log.isDebugEnabled()) {
if (iterator.hasNext()) {
log.debug("Interaction contains interactor with more than one identities. Interaction: " + interaction.getShortLabel() + "(" + interaction.getAc() + ") " +
" - Xrefs: " + idXrefs);
}
}
}
}
return ids;
}代码示例来源：origin: uk.ac.ebi.intact.util/data-conversion
/**
* It takes an interactions Collection and retrieves the ACs for the interactions that have a NucleicAcid or
* SmallMolecule as component.
* This is used in case psi version is PSI 1.0 as it does not allow Nucleic Acid as Interaction's participant.
* @param interactions Collection of interactions
* @return a list with the ACs which should be filtered
*/
public static List<String> filterInteractions(Collection<Interaction> interactions){
List<String> filteredAcs = new ArrayList<String>();
for (Interaction interaction : interactions)
{
if ( InteractionUtils.containsNonProteinInteractors(interaction)
|| InteractionUtils.isSelfInteraction(interaction)
|| InteractionUtils.isUnaryInteraction( interaction ) )
{
filteredAcs.add(interaction.getAc());
}
}
return filteredAcs;
}代码示例来源：origin: uk.ac.ebi.intact.app/data-conversion
/**
* It takes an interactions Collection and retrieves the ACs for the interactions that have a NucleicAcid or
* SmallMolecule as component.
* This is used in case psi version is PSI 1.0 as it does not allow Nucleic Acid as Interaction's participant.
* @param interactions Collection of interactions
* @return a list with the ACs which should be filtered
*/
public static List<String> filterInteractions(Collection<Interaction> interactions){
List<String> filteredAcs = new ArrayList<String>();
for (Interaction interaction : interactions)
{
if ( InteractionUtils.containsNonProteinInteractors(interaction)
|| InteractionUtils.isSelfInteraction(interaction)
|| InteractionUtils.isUnaryInteraction( interaction ) )
{
filteredAcs.add(interaction.getAc());
}
}
return filteredAcs;
}代码示例来源：origin: uk.ac.ebi.intact.dataexchange.psimi.legacy/data-conversion
/**
* It takes an interactions Collection and retrieves the ACs for the interactions that have a NucleicAcid or
* SmallMolecule as component.
* This is used in case psi version is PSI 1.0 as it does not allow Nucleic Acid as Interaction's participant.
* @param interactions Collection of interactions
* @return a list with the ACs which should be filtered
*/
public static List<String> filterInteractions(Collection<Interaction> interactions){
List<String> filteredAcs = new ArrayList<String>();
for (Interaction interaction : interactions)
{
if ( InteractionUtils.containsNonProteinInteractors(interaction)
|| InteractionUtils.isSelfInteraction(interaction)
|| InteractionUtils.isUnaryInteraction( interaction ) )
{
filteredAcs.add(interaction.getAc());
}
}
return filteredAcs;
}代码示例来源：origin: uk.ac.ebi.intact.dataexchange/intact-tasks
log.info("Processing interaction : " + intactInteraction.getAc());代码示例来源：origin: uk.ac.ebi.intact.core/intact-core-readonly
@Override
protected String findAcForInteraction( Interaction interaction ) {
// replace all this eventually by just using the CRC
InteractionDao interactionDao = getDaoFactory().getInteractionDao();
CrcCalculator crcCalculator = new CrcCalculator();
// Get the interactors where exactly the same interactors are involved
List<String> interactorPrimaryIDs = InteractionUtils.getInteractorPrimaryIDs( interaction );
List<Interaction> interactionsWithSameInteractors =
interactionDao.getByInteractorsPrimaryId( true, interactorPrimaryIDs.toArray( new String[interactorPrimaryIDs.size()] ) );
for ( Interaction interactionWithSameInteractor : interactionsWithSameInteractors ) {
String interactionCrc = crcCalculator.crc64( interaction );
String interactionWithSameInteractorCrc = crcCalculator.crc64( interactionWithSameInteractor );
if ( interactionCrc.equals( interactionWithSameInteractorCrc ) ) {
return interactionWithSameInteractor.getAc();
}
}
return null;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core
@Override
protected String findAcForInteraction( Interaction interaction ) {
// replace all this eventually by just using the CRC
InteractionDao interactionDao = getDaoFactory().getInteractionDao();
CrcCalculator crcCalculator = new CrcCalculator();
// Get the interactors where exactly the same interactors are involved
List<String> interactorPrimaryIDs = InteractionUtils.getInteractorPrimaryIDs( interaction );
List<Interaction> interactionsWithSameInteractors =
interactionDao.getByInteractorsPrimaryId( true, interactorPrimaryIDs.toArray( new String[interactorPrimaryIDs.size()] ) );
for ( Interaction interactionWithSameInteractor : interactionsWithSameInteractors ) {
String interactionCrc = crcCalculator.crc64( interaction );
String interactionWithSameInteractorCrc = crcCalculator.crc64( interactionWithSameInteractor );
if ( interactionCrc.equals( interactionWithSameInteractorCrc ) ) {
return interactionWithSameInteractor.getAc();
}
}
return null;
}代码示例来源：origin: uk.ac.ebi.intact.dataexchange.uniprotexport/intact-uniprot-export
/**
* Filter the binary interactions of a given list of interactions and return a list composed with only binary interactions
* @param interactionAcs : the list of interaction accessions
* @param eligibleInteractions : the list of eligible interactions for uniprot export
*/
private void filterTrueBinaryInteractions(List<String> interactionAcs, List<String> eligibleInteractions) {
// process each interaction of the list
final int interactionCount = interactionAcs.size();
for (int i = 0; i < interactionCount; i++) {
TransactionStatus status = IntactContext.getCurrentInstance().getDataContext().beginTransaction();
// get the IntAct interaction object
String interactionAc = interactionAcs.get(i);
Interaction interaction = IntactContext.getCurrentInstance().getDaoFactory().getInteractionDao().getByAc(interactionAc);
// the interaction exists in IntAct
if (interaction != null){
logger.info("\t\t Interaction: Shortlabel:" + interaction.getShortLabel() + " AC: " + interaction.getAc());
if (InteractionUtils.isBinaryInteraction(interaction)){
eligibleInteractions.add(interactionAc);
}
}
IntactContext.getCurrentInstance().getDataContext().commitTransaction(status);
} // i
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core-readonly
private static Collection<Annotation> fetchAnnotations(Interaction interaction) {
Collection<Annotation> annotations;
if (IntactCore.isInitialized(interaction.getAnnotations())) {
annotations = interaction.getAnnotations();
} else {
annotations = IntactContext.getCurrentInstance().getDaoFactory().getAnnotationDao().getByParentAc(InteractionImpl.class, interaction.getAc());
}
return annotations;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core
private static Collection<Annotation> fetchAnnotations(Interaction interaction) {
Collection<Annotation> annotations;
if (IntactCore.isInitialized(interaction.getAnnotations())) {
annotations = interaction.getAnnotations();
} else {
annotations = IntactContext.getCurrentInstance().getDaoFactory().getAnnotationDao().getByParentAc(InteractionImpl.class, interaction.getAc());
}
return annotations;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core
/**
* Retrieves the confidences from an interaction, initializing them if necessary.
* Do not set the initialized collection of confidences because confidences cannot be orphan
* @param interaction the interaction
* @return The returned confidences are ensured to be initialized
* @since 2.4.0
*/
public static Collection<Confidence> ensureInitializedConfidences(Interaction interaction) {
Collection<Confidence> confidences;
if (IntactCore.isInitialized(interaction.getConfidences())) {
confidences = interaction.getConfidences();
} else {
confidences = IntactContext.getCurrentInstance().getDaoFactory().getConfidenceDao().getByInteractionAc(interaction.getAc());
}
return confidences;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core-readonly
/**
* Retrieves the experiment from an interaction, initializing them if necessary.
*
* @param interaction the interaction
* @return The returned experiments are ensured to be initialized
* @since 2.4.0
*/
public static Collection<Experiment> ensureInitializedExperiments(Interaction interaction) {
Collection<Experiment> experiments;
if (IntactCore.isInitialized(interaction.getExperiments())) {
experiments = interaction.getExperiments();
} else {
experiments = IntactContext.getCurrentInstance().getDaoFactory().getExperimentDao().getByInteractionAc(interaction.getAc());
}
return experiments;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core
/**
* Retrieves the experiment from an interaction, initializing them if necessary.
*
* @param interaction the interaction
* @return The returned experiments are ensured to be initialized
* @since 2.4.0
*/
public static Collection<Experiment> ensureInitializedExperiments(Interaction interaction) {
Collection<Experiment> experiments;
if (IntactCore.isInitialized(interaction.getExperiments())) {
experiments = interaction.getExperiments();
} else {
experiments = IntactContext.getCurrentInstance().getDaoFactory().getExperimentDao().getByInteractionAc(interaction.getAc());
}
return experiments;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core
/**
* Retrieves the parameters from an interaction, initializing them if necessary.
* Do not set the initialized collection of parameters because parameters cannot be orphan
* @param interaction the interaction
* @return The returned confidences are ensured to be initialized
* @since 2.4.0
*/
public static Collection<InteractionParameter> ensureInitializedInteractionParameters(Interaction interaction) {
Collection<InteractionParameter> parameters;
if (IntactCore.isInitialized(interaction.getParameters())) {
parameters = interaction.getParameters();
} else {
parameters = IntactContext.getCurrentInstance().getDaoFactory().getInteractionParameterDao().getByInteractionAc(interaction.getAc());
}
return parameters;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core-readonly
/**
* Retrieves the confidences from an interaction, initializing them if necessary.
* Do not set the initialized collection of confidences because confidences cannot be orphan
* @param interaction the interaction
* @return The returned confidences are ensured to be initialized
* @since 2.4.0
*/
public static Collection<Confidence> ensureInitializedConfidences(Interaction interaction) {
Collection<Confidence> confidences;
if (IntactCore.isInitialized(interaction.getConfidences())) {
confidences = interaction.getConfidences();
} else {
confidences = IntactContext.getCurrentInstance().getDaoFactory().getConfidenceDao().getByInteractionAc(interaction.getAc());
}
return confidences;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core-readonly
/**
* Retrieves the parameters from an interaction, initializing them if necessary.
* Do not set the initialized collection of parameters because parameters cannot be orphan
* @param interaction the interaction
* @return The returned confidences are ensured to be initialized
* @since 2.4.0
*/
public static Collection<InteractionParameter> ensureInitializedInteractionParameters(Interaction interaction) {
Collection<InteractionParameter> parameters;
if (IntactCore.isInitialized(interaction.getParameters())) {
parameters = interaction.getParameters();
} else {
parameters = IntactContext.getCurrentInstance().getDaoFactory().getInteractionParameterDao().getByInteractionAc(interaction.getAc());
}
return parameters;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core-readonly
/**
* Retrieves the components from an interaction, initializing them if necessary.
* Do not set the initialized collection of components because components cannot be orphan
*
* @param interaction the interaction
* @return The returned components are ensured to be initialized
* @since 2.4.0
*/
public static Collection<Component> ensureInitializedParticipants(Interaction interaction) {
Collection<Component> components;
if (IntactCore.isInitialized(interaction.getComponents())) {
components = interaction.getComponents();
} else {
components = IntactContext.getCurrentInstance().getDaoFactory().getComponentDao().getByInteractionAc(interaction.getAc());
}
return components;
}代码示例来源：origin: uk.ac.ebi.intact.core/intact-core
/**
* Retrieves the components from an interaction, initializing them if necessary.
* Do not set the initialized collection of components because components cannot be orphan
*
* @param interaction the interaction
* @return The returned components are ensured to be initialized
* @since 2.4.0
*/
public static Collection<Component> ensureInitializedParticipants(Interaction interaction) {
Collection<Component> components;
if (IntactCore.isInitialized(interaction.getComponents())) {
components = interaction.getComponents();
} else {
components = IntactContext.getCurrentInstance().getDaoFactory().getComponentDao().getByInteractionAc(interaction.getAc());
}
return components;
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