Package org.molgenis.data.vcf.importer

Class VcfImporterService

  • All Implemented Interfaces:
    org.molgenis.data.importer.ImportService, org.springframework.core.Ordered
    @Service
public class VcfImporterService
extends java.lang.Object
implements org.molgenis.data.importer.ImportService

    • Field Summary

      • Fields inherited from interface org.springframework.core.Ordered

        HIGHEST_PRECEDENCE, LOWEST_PRECEDENCE

    • Constructor Summary

      Constructors 
      Constructor Description
      VcfImporterService​(org.molgenis.data.DataService dataService, org.molgenis.data.security.permission.PermissionSystemService permissionSystemService, org.molgenis.data.meta.MetaDataService metaDataService)  

    • Method Summary

      All Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      boolean canImport​(java.io.File file, org.molgenis.data.RepositoryCollection source)  
      java.util.Map<java.lang.String,​java.lang.Boolean> determineImportableEntities​(org.molgenis.data.meta.MetaDataService metaDataService, org.molgenis.data.RepositoryCollection repositoryCollection, java.lang.String defaultPackage)  
      org.molgenis.data.importer.EntityImportReport doImport​(org.molgenis.data.RepositoryCollection source, org.molgenis.data.importer.MetadataAction metadataAction, org.molgenis.data.DataAction dataAction, java.lang.String packageId)  
      org.molgenis.data.importer.MetadataAction getMetadataAction​(org.molgenis.data.RepositoryCollection source)  
      boolean getMustChangeEntityName()  
      int getOrder()  
      java.util.List<org.molgenis.data.DataAction> getSupportedDataActions()  
      java.util.Set<java.lang.String> getSupportedFileExtensions()  
      java.util.List<org.molgenis.data.importer.MetadataAction> getSupportedMetadataActions()  
      org.molgenis.data.importer.EntitiesValidationReport validateImport​(java.io.File file, org.molgenis.data.RepositoryCollection source)  

      • Methods inherited from class java.lang.Object

        clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

    • Constructor Detail

      • VcfImporterService

        public VcfImporterService​(org.molgenis.data.DataService dataService,
                          org.molgenis.data.security.permission.PermissionSystemService permissionSystemService,
                          org.molgenis.data.meta.MetaDataService metaDataService)

    • Method Detail

      • doImport

        @Transactional
public org.molgenis.data.importer.EntityImportReport doImport​(org.molgenis.data.RepositoryCollection source,
                                                              org.molgenis.data.importer.MetadataAction metadataAction,
                                                              org.molgenis.data.DataAction dataAction,
                                                              @Nullable @CheckForNull
                                                              java.lang.String packageId)
        Specified by:
        doImport in interface org.molgenis.data.importer.ImportService

      • validateImport

        public org.molgenis.data.importer.EntitiesValidationReport validateImport​(java.io.File file,
                                                                          org.molgenis.data.RepositoryCollection source)
        Specified by:
        validateImport in interface org.molgenis.data.importer.ImportService

      • canImport

        public boolean canImport​(java.io.File file,
                         org.molgenis.data.RepositoryCollection source)
        Specified by:
        canImport in interface org.molgenis.data.importer.ImportService

      • getOrder

        public int getOrder()
        Specified by:
        getOrder in interface org.springframework.core.Ordered

      • getSupportedMetadataActions

        public java.util.List<org.molgenis.data.importer.MetadataAction> getSupportedMetadataActions()
        Specified by:
        getSupportedMetadataActions in interface org.molgenis.data.importer.ImportService

      • getSupportedDataActions

        public java.util.List<org.molgenis.data.DataAction> getSupportedDataActions()
        Specified by:
        getSupportedDataActions in interface org.molgenis.data.importer.ImportService

      • getMustChangeEntityName

        public boolean getMustChangeEntityName()
        Specified by:
        getMustChangeEntityName in interface org.molgenis.data.importer.ImportService

      • getSupportedFileExtensions

        public java.util.Set<java.lang.String> getSupportedFileExtensions()
        Specified by:
        getSupportedFileExtensions in interface org.molgenis.data.importer.ImportService

      • determineImportableEntities

        public java.util.Map<java.lang.String,​java.lang.Boolean> determineImportableEntities​(org.molgenis.data.meta.MetaDataService metaDataService,
                                                                                           org.molgenis.data.RepositoryCollection repositoryCollection,
                                                                                           java.lang.String defaultPackage)
        Specified by:
        determineImportableEntities in interface org.molgenis.data.importer.ImportService

      • getMetadataAction

        public org.molgenis.data.importer.MetadataAction getMetadataAction​(org.molgenis.data.RepositoryCollection source)
        Specified by:
        getMetadataAction in interface org.molgenis.data.importer.ImportService