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persist

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Reading from database using SQL prepared statement

A generic Abstract Window Toolkit(AWT) container object is a component that can
contain other AWT co

java.awt.Container

A point representing a location in (x,y) coordinate space, specified in integer
precision.

java.awt.Point

java.nio.file.Path

Formats or parses dates and times.This class provides factories for obtaining
instances configured f

java.text.DateFormat

Timers schedule one-shot or recurring TimerTask for execution. Prefer
java.util.concurrent.Scheduled

java.util.Timer

The Manifest class is used to obtain attribute information for a JarFile and its
entries.

java.util.jar.Manifest

setScale

requestLocationUpdates

getSharedPreferences

/**
 * Persist the Interaction according to its PSI description. A Shortlabel is automatically generated based on
 * the gene names of the participant, if no gene name are available we use the protein AC. An Interaction
 * can be linked to multiple experiment in PSI, we do take it into account and we manages cases where an interaction
 * already exists, attached to one Experiment (let's call it E1) and the same interaction is also declared in the
 * PSI file as interacting in E1 and E2, in which case we just create an extra interaction and link it to E2. 
 * So far, we do not automatically link several Experiment to a single Interaction using the PSI loader. 
 *
 * @param interactionTag the PSI definition of the Interaction
 *
 * @return the collection of created IntAct Interaction.
 *
 * @throws IntactException if an error occurs while persisting the data in IntAct.
 */

// that updates the experiment collection and only leaves those for which we have to create a new interaction

// LOOP HERE OVER THE RESULT COLLECTION(shortlabel, experiment)

/* Components
            * The way to create an Interaction is NOT TRIVIAL: we have firstly to create an
            * Interaction Object with an empty collection of Component. and Then we have to
            * use the interaction.addComponent( Component c ) to fill it up.
            */

// check if there is a Kd value available

// search for an annotation to re-use, instead of creating a new one.

// doesn't exist, then create a new Annotation

// no need for an else, the additional annotation topic have been controlled by the checker.

// TODO clean that thing. Right now we are most of the time stuffing the author confidence as annotation

// TODO look after that unit parameter, we might have to adapt the CvTopic accordingly later.

// check if that annotation could not be shared.

How to useProteinParticipantPersister in uk.ac.ebi.intact.application.dataConversion.psiUpload.persister

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How to use
ProteinParticipantPersister
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uk.ac.ebi.intact.application.dataConversion.psiUpload.persister