org.molgenis.controller

Class VariantController

java.lang.Object

org.molgenis.controller.VariantController

@Lazy
@Controller
@RequestMapping(value="/api/v1/variant")
public class VariantController
extends Object

Constructor Summary

Constructors

Constructor and Description
VariantController()

Method Summary

Methods

Modifier and Type	Method and Description
void	binder(org.springframework.web.bind.WebDataBinder binder)
org.springframework.http.ResponseEntity<org.molgenis.controller.VariantController.VariantResponse>	createVariant(org.molgenis.controller.VariantController.VariantRequest variantRequest)
org.springframework.http.ResponseEntity<org.molgenis.controller.VariantController.VariantResponse>	createVariantFromForm(org.molgenis.controller.VariantController.VariantRequest variantRequest)
void	deleteVariant(Integer id)
void	deleteVariantPost(Integer id)
ErrorMessageResponse	handleDatabaseAccessException(DatabaseAccessException e)
ErrorMessageResponse	handleDatabaseException(DatabaseException e)
ErrorMessageResponse	handleEntityNotFoundException(EntityNotFoundException e)
ErrorMessageResponse	handleRuntimeException(RuntimeException e)
org.molgenis.controller.VariantController.VariantResponse	retrieveVariant(Integer id, String... expandFields)
EntityCollectionResponse<org.molgenis.controller.VariantController.VariantResponse>	retrieveVariantCollection(EntityCollectionRequest variantCollectionRequest, String... expandFields)
EntityCollectionResponse<org.molgenis.controller.VariantController.VariantResponse>	retrieveVariantCollectionJson(EntityCollectionRequest variantCollectionRequest, String... expandFields)
EntityCollectionResponse<org.molgenis.controller.VariantController.VariantResponse>	retrieveVariantCollectionJsonPost(EntityCollectionRequest variantCollectionRequest, String... expandFields)
EntityCollectionResponse<org.molgenis.controller.VariantController.VariantResponse>	retrieveVariantCollectionPost(EntityCollectionRequest variantCollectionRequest, String... expandFields)
org.molgenis.controller.VariantController.VariantResponse	retrieveVariantJson(Integer id, String... expandFields)
String	retrieveVariantXrefChromosome(Integer id, String... expandFields)
String	retrieveVariantXrefChromosomeJson(Integer id, String... expandFields)
String	retrieveVariantXrefTrack(Integer id, String... expandFields)
String	retrieveVariantXrefTrackJson(Integer id, String... expandFields)
void	updateVariant(Integer id, org.molgenis.controller.VariantController.VariantRequest variantRequest)
org.springframework.http.ResponseEntity<org.molgenis.controller.VariantController.VariantResponse>	updateVariantFromForm(Integer id, String _method, org.molgenis.controller.VariantController.VariantRequest variantRequest)
void	updateVariantFromFormPost(Integer id, org.molgenis.controller.VariantController.VariantRequest variantRequest)
void	updateVariantPost(Integer id, org.molgenis.controller.VariantController.VariantRequest variantRequest)

Methods inherited from class java.lang.Object

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

Constructor Detail

VariantController

public VariantController()

Method Detail

createVariant

@RequestMapping(method=POST)
@ResponseBody
public org.springframework.http.ResponseEntity<org.molgenis.controller.VariantController.VariantResponse> createVariant(@RequestBody
                                                                                                                                           org.molgenis.controller.VariantController.VariantRequest variantRequest)
                                                                                                                 throws DatabaseException

Throws:

DatabaseException

createVariantFromForm

@RequestMapping(method=POST,
                headers="Content-Type=application/x-www-form-urlencoded")
@ResponseBody
public org.springframework.http.ResponseEntity<org.molgenis.controller.VariantController.VariantResponse> createVariantFromForm(@ModelAttribute
                                                                                                                                                   org.molgenis.controller.VariantController.VariantRequest variantRequest)
                                                                                                                         throws DatabaseException

Throws:

DatabaseException

retrieveVariant

@RequestMapping(value="/{id}",
                method=GET)
@ResponseBody
public org.molgenis.controller.VariantController.VariantResponse retrieveVariant(@PathVariable
                                                                                                    Integer id,
                                                                                                    @RequestParam(value="expand",required=false)
                                                                                                    String... expandFields)
                                                                          throws DatabaseException

Throws:

DatabaseException

retrieveVariantJson

@RequestMapping(value="/{id}",
                method=GET,
                params="format=json",
                produces="application/json")
@ResponseBody
public org.molgenis.controller.VariantController.VariantResponse retrieveVariantJson(@PathVariable
                                                                                                        Integer id,
                                                                                                        @RequestParam(value="expand",required=false)
                                                                                                        String... expandFields)
                                                                              throws DatabaseException

Throws:

DatabaseException

binder

@InitBinder
public void binder(org.springframework.web.bind.WebDataBinder binder)

retrieveVariantXrefChromosome

@RequestMapping(value="/{id}/chromosome",
                method=GET)
public String retrieveVariantXrefChromosome(@PathVariable
                                                  Integer id,
                                                  @RequestParam(value="expand",required=false)
                                                  String... expandFields)
                                     throws DatabaseException

Throws:

DatabaseException

retrieveVariantXrefChromosomeJson

@RequestMapping(value="/{id}/chromosome",
                method=GET,
                params="format=json",
                produces="application/json")
public String retrieveVariantXrefChromosomeJson(@PathVariable
                                                      Integer id,
                                                      @RequestParam(value="expand",required=false)
                                                      String... expandFields)
                                         throws DatabaseException

Throws:

DatabaseException

retrieveVariantXrefTrack

@RequestMapping(value="/{id}/track",
                method=GET)
public String retrieveVariantXrefTrack(@PathVariable
                                             Integer id,
                                             @RequestParam(value="expand",required=false)
                                             String... expandFields)
                                throws DatabaseException

Throws:

DatabaseException

retrieveVariantXrefTrackJson

@RequestMapping(value="/{id}/track",
                method=GET,
                params="format=json",
                produces="application/json")
public String retrieveVariantXrefTrackJson(@PathVariable
                                                 Integer id,
                                                 @RequestParam(value="expand",required=false)
                                                 String... expandFields)
                                    throws DatabaseException

Throws:

DatabaseException

updateVariant

@RequestMapping(value="/{id}",
                method=PUT)
@ResponseStatus(value=OK)
public void updateVariant(@PathVariable
                                               Integer id,
                                               @RequestBody
                                               org.molgenis.controller.VariantController.VariantRequest variantRequest)
                   throws DatabaseException

Throws:

DatabaseException

updateVariantFromForm

@RequestMapping(value="/{id}",
                method=PUT,
                headers="Content-Type=application/x-www-form-urlencoded")
@ResponseBody
public org.springframework.http.ResponseEntity<org.molgenis.controller.VariantController.VariantResponse> updateVariantFromForm(@PathVariable
                                                                                                                                                   Integer id,
                                                                                                                                                   @PathVariable
                                                                                                                                                   String _method,
                                                                                                                                                   @ModelAttribute
                                                                                                                                                   org.molgenis.controller.VariantController.VariantRequest variantRequest)
                                                                                                                         throws DatabaseException

Throws:

DatabaseException

updateVariantPost

@RequestMapping(value="/{id}",
                method=POST,
                params="_method=PUT")
@ResponseStatus(value=NO_CONTENT)
public void updateVariantPost(@PathVariable
                                                   Integer id,
                                                   @RequestBody
                                                   org.molgenis.controller.VariantController.VariantRequest variantRequest)
                       throws DatabaseException

Throws:

DatabaseException

updateVariantFromFormPost

@RequestMapping(value="/{id}",
                method=POST,
                params="_method=PUT",
                headers="Content-Type=application/x-www-form-urlencoded")
@ResponseStatus(value=NO_CONTENT)
public void updateVariantFromFormPost(@PathVariable
                                                           Integer id,
                                                           @ModelAttribute
                                                           org.molgenis.controller.VariantController.VariantRequest variantRequest)
                               throws DatabaseException

Throws:

DatabaseException

deleteVariant

@RequestMapping(value="/{id}",
                method=DELETE)
@ResponseStatus(value=NO_CONTENT)
public void deleteVariant(@PathVariable
                                               Integer id)
                   throws DatabaseException

Throws:

DatabaseException

deleteVariantPost

@RequestMapping(value="/{id}",
                method=POST,
                params="_method=DELETE")
@ResponseStatus(value=NO_CONTENT)
public void deleteVariantPost(@PathVariable
                                                   Integer id)
                       throws DatabaseException

Throws:

DatabaseException

retrieveVariantCollection

@RequestMapping(method=GET)
@ResponseBody
public EntityCollectionResponse<org.molgenis.controller.VariantController.VariantResponse> retrieveVariantCollection(EntityCollectionRequest variantCollectionRequest,
                                                                                                                                        @RequestParam(value="expand",required=false)
                                                                                                                                        String... expandFields)
                                                                                                              throws DatabaseException

Throws:

DatabaseException

retrieveVariantCollectionJson

@RequestMapping(method=GET,
                params="format=json",
                produces="application/json")
@ResponseBody
public EntityCollectionResponse<org.molgenis.controller.VariantController.VariantResponse> retrieveVariantCollectionJson(EntityCollectionRequest variantCollectionRequest,
                                                                                                                                            @RequestParam(value="expand",required=false)
                                                                                                                                            String... expandFields)
                                                                                                                  throws DatabaseException

Throws:

DatabaseException

retrieveVariantCollectionPost

@RequestMapping(method=POST,
                params="_method=GET")
@ResponseBody
public EntityCollectionResponse<org.molgenis.controller.VariantController.VariantResponse> retrieveVariantCollectionPost(@RequestBody
                                                                                                                                            EntityCollectionRequest variantCollectionRequest,
                                                                                                                                            @RequestParam(value="expand",required=false)
                                                                                                                                            String... expandFields)
                                                                                                                  throws DatabaseException

Throws:

DatabaseException

retrieveVariantCollectionJsonPost

@RequestMapping(method=POST,
                params={"_method=GET","format=json"},
                produces="application/json")
@ResponseBody
public EntityCollectionResponse<org.molgenis.controller.VariantController.VariantResponse> retrieveVariantCollectionJsonPost(@RequestBody
                                                                                                                                                EntityCollectionRequest variantCollectionRequest,
                                                                                                                                                @RequestParam(value="expand",required=false)
                                                                                                                                                String... expandFields)
                                                                                                                      throws DatabaseException

Throws:

DatabaseException

handleEntityNotFoundException

@ExceptionHandler(value=org.molgenis.framework.db.EntityNotFoundException.class)
@ResponseStatus(value=NOT_FOUND)
@ResponseBody
public ErrorMessageResponse handleEntityNotFoundException(EntityNotFoundException e)

handleDatabaseException

@ExceptionHandler(value=org.molgenis.framework.db.DatabaseException.class)
@ResponseStatus(value=INTERNAL_SERVER_ERROR)
@ResponseBody
public ErrorMessageResponse handleDatabaseException(DatabaseException e)

handleDatabaseAccessException

@ExceptionHandler(value=org.molgenis.framework.db.DatabaseAccessException.class)
@ResponseStatus(value=UNAUTHORIZED)
@ResponseBody
public ErrorMessageResponse handleDatabaseAccessException(DatabaseAccessException e)

handleRuntimeException

@ExceptionHandler(value=java.lang.RuntimeException.class)
@ResponseStatus(value=INTERNAL_SERVER_ERROR)
@ResponseBody
public ErrorMessageResponse handleRuntimeException(RuntimeException e)