Public

displayUsage

It take an interactions Collection and remove from it all the interactions
having a NucleicAcid as c

filterInteractions

Convert a list of experiment into PSI XML

generateData

Generates a PSI MI formatted file for a searchPattern. Large scale Experiments
will typically be a s

generatePsiData

Obtains the data from the dataSource, in preparation for the flat file
generation.

getExperiments

processLargeExperiment

setupCommandLineOptions

Write an Element (supposingly the root of a document) into a file.

write

Gson

Creating JSON documents from java classes using gson

This class represents a server-side socket that waits for incoming client
connections. A ServerSocke

java.net.ServerSocket

Formats and parses dates in a locale-sensitive manner. Formatting turns a Date
into a String, and pa

java.text.SimpleDateFormat

 Calendar is an abstract base class for converting between a Date object and a
set of integer fields

java.util.Calendar

A collection designed for holding elements prior to processing. Besides basic
java.util.Collection o

java.util.Queue

 ResourceBundle is an abstract class which is the superclass of classes which
provide Locale-specifi

java.util.ResourceBundle

The annotation structure.An instance of this class is returned bygetAnnotations() in AnnotationsAttr

javassist.bytecode.annotation.Annotation

requestLocationUpdates

setContentView

runOnUiThread

/**
     * Generates a PSI MI formatted file for a searchPattern. Large scale Experiments will typically be a searchpattern
     * of a single shortlabel, and these are processed as chunks. Small scale ones will generally have a searchpattern
     * consisting of multiple shortlabels, and these will be placed into a single file.
     *
     * @param searchPattern a comma separated list of experiment's shortlabel.
     * @param fileName      the file in which we will store the generated XML.
     * @param version       the PSI version of the generated XML output.
     *
     * @throws Exception
     */

//get all of the Experiment shortlabels and process them according

//to the size of their interaction list..

//NB this currently means that if the search result size

//is one and the number of interactions is large then we process seperately.

//may be a large experiment - check and process if necessary

//not a large experiment - may be a single small one or a set of small ones,

//so process 'normally' into a single file...

// When generating psi1 xml files, we remove all the interactions having a Nucleic Acid as participant

// we can end up in having a psiDocument containing no experimentList tag as all the Experiments where

// only composed of interactions having Nucleic Acid as Participants. In this case we don't want to print

// out and xml file without any experimentList tag, therefore we do this check on the count of experimentList

How to use generateDatamethodin uk.ac.ebi.intact.application.dataConversion.FileGenerator

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How to use
generateData
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uk.ac.ebi.intact.application.dataConversion.FileGenerator