Example usage for org.springframework.transaction.support TransactionCallbackWithoutResult TransactionCallbackWithoutResult

List of usage examples for org.springframework.transaction.support TransactionCallbackWithoutResult TransactionCallbackWithoutResult

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Introduction

In this page you can find the example usage for org.springframework.transaction.support TransactionCallbackWithoutResult TransactionCallbackWithoutResult.

Prototype

TransactionCallbackWithoutResult

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Usage

From source file:ubc.pavlab.aspiredb.server.project.ProjectManagerTest.java

@Test
public void testAddSubjectVariantsToProjectSecurity() {

    super.runAsAdmin();

    final String patientId = RandomStringUtils.randomAlphabetic(5);
    final String projectName = RandomStringUtils.randomAlphabetic(5);

    CharacteristicValueObject cvo = new CharacteristicValueObject();

    cvo.setKey("testChar");
    cvo.setValue("testcharvalue");

    Map<String, CharacteristicValueObject> charMap = new HashMap<String, CharacteristicValueObject>();
    charMap.put(cvo.getKey(), cvo);//w w  w .  j  a  v  a 2  s  . c  o  m

    CNVValueObject cnv = new CNVValueObject();

    cnv.setCharacteristics(charMap);
    cnv.setType("GAIN");

    GenomicRange gr = new GenomicRange("X", 3, 234);

    cnv.setGenomicRange(gr);

    cnv.setPatientId(patientId);

    // Another CNV from the same patient
    CNVValueObject cnv2 = new CNVValueObject();
    cnv2.setCharacteristics(charMap);
    cnv2.setType("LOSS");
    cnv2.setGenomicRange(gr);
    cnv2.setPatientId(patientId);

    ArrayList<VariantValueObject> cnvList = new ArrayList<VariantValueObject>();
    cnvList.add(cnv);
    cnvList.add(cnv2);

    try {

        projectManager.addSubjectVariantsToProject(projectName, true, cnvList);

    } catch (Exception e) {
        log.error(e.getLocalizedMessage(), e);
        fail("projectManager.addSubjectVariantsToProject threw an exception " + e);

    }

    projectManager.alterGroupWritePermissions(projectName, groupName, true);

    TransactionTemplate tt = new TransactionTemplate(transactionManager);
    tt.execute(new TransactionCallbackWithoutResult() {
        @Override
        public void doInTransactionWithoutResult(TransactionStatus status) {

            Project project = projectDao.findByProjectName(projectName);

            aclTestUtils.checkHasAcl(project);

            assertFalse(
                    "Project should not be viewable by user '" + aDifferentUsername + "', acl is "
                            + aclTestUtils.getAcl(project),
                    securityService.isViewableByUser(project, aDifferentUsername));

            // now to test
            List<Subject> subjects = project.getSubjects();
            assertEquals(1, subjects.size());

            Subject subject = project.getSubjects().iterator().next();

            aclTestUtils.checkHasAcl(subject);

            assertFalse(securityService.isViewableByUser(subject, aDifferentUsername));

            // equals to cnvList
            assertEquals(2, subject.getVariants().size());

            variantDao.findBySubjectPatientId(project.getId(), patientId);

            // for ( Variant v : variantCollection ) {
            // // aclTestUtils.checkHasAcl( v );
            // // assertFalse( securityService.isViewableByUser( v, aDifferentUsername ) );
            //
            // Characteristic c = v.getCharacteristics().iterator().next();
            // aclTestUtils.checkHasAcl( c );
            // assertFalse( securityService.isViewableByUser( c, aDifferentUsername ) );
            // }

        }
    });

    try {

        projectManager.deleteProject(projectName);

    } catch (Exception e) {
        log.error(e.getLocalizedMessage(), e);

    }

}

From source file:ubc.pavlab.aspiredb.server.project.ProjectManagerTest.java

@Test
public void testAlterGroupWritePermissionsForProject() {

    super.runAsAdmin();

    final String patientId = RandomStringUtils.randomAlphabetic(5);
    final String projectName = RandomStringUtils.randomAlphabetic(7);

    CharacteristicValueObject cvo = new CharacteristicValueObject();

    cvo.setKey("testChar");
    cvo.setValue("testcharvalue");

    Map<String, CharacteristicValueObject> charMap = new HashMap<String, CharacteristicValueObject>();
    charMap.put(cvo.getKey(), cvo);// ww  w .  ja  v a  2 s .  c o  m

    CNVValueObject cnv = new CNVValueObject();

    cnv.setCharacteristics(charMap);
    cnv.setType("GAIN");

    GenomicRange gr = new GenomicRange("X", 3, 234);

    cnv.setGenomicRange(gr);

    cnv.setPatientId(patientId);

    ArrayList<VariantValueObject> cnvList = new ArrayList<VariantValueObject>();
    cnvList.add(cnv);

    try {

        projectManager.addSubjectVariantsToProject(projectName, true, cnvList);

    } catch (Exception e) {

        fail("projectManager.addSubjectVariantsToProject threw an exception");

        e.printStackTrace();
    }

    // authorizedUsername is in groupName
    projectManager.alterGroupWritePermissions(projectName, groupName, true);

    // make sure authorizedUsername has read access to all the stuff in a project after security change
    TransactionTemplate tt = new TransactionTemplate(transactionManager);
    tt.execute(new TransactionCallbackWithoutResult() {
        @Override
        public void doInTransactionWithoutResult(TransactionStatus status) {

            Project project = projectDao.findByProjectName(projectName);

            assertTrue(securityService.isViewableByUser(project, authorizedUsername));

            Subject subject = project.getSubjects().iterator().next();

            assertTrue(securityService.isViewableByUser(subject, authorizedUsername));

            variantDao.findBySubjectPatientId(project.getId(), patientId);

            // for ( Variant v : variantCollection ) {
            //
            // assertTrue( securityService.isViewableByUser( v, authorizedUsername ) );
            //
            // assertTrue( securityService.isViewableByUser( v.getCharacteristics().iterator().next(),
            // authorizedUsername ) );
            // }

        }
    });

    // make sure aDifferentUserName doesn't have access to stuff in project
    TransactionTemplate tt2 = new TransactionTemplate(transactionManager);
    tt2.execute(new TransactionCallbackWithoutResult() {
        @Override
        public void doInTransactionWithoutResult(TransactionStatus status) {

            Project project = projectDao.findByProjectName(projectName);

            assertFalse(securityService.isViewableByUser(project, aDifferentUsername));

            Subject subject = project.getSubjects().iterator().next();

            assertFalse(securityService.isViewableByUser(subject, aDifferentUsername));

            variantDao.findBySubjectPatientId(project.getId(), patientId);

            // for ( Variant v : variantCollection ) {
            //
            // assertFalse( securityService.isViewableByUser( v, aDifferentUsername ) );
            //
            // assertFalse( securityService.isViewableByUser( v.getCharacteristics().iterator().next(),
            // aDifferentUsername ) );
            // }

        }
    });

    // test out a couple of dao methods

    super.runAsUser(authorizedUsername);

    long projectId = projectDao.findByProjectName(projectName).getId();

    variantDao.findBySubjectPatientId(projectId, patientId);

    super.runAsUser(aDifferentUsername);

    try {
        projectId = projectDao.findByProjectName(projectName).getId();
        fail("should have got Access Denied");
    } catch (AccessDeniedException e) {

    }

    Collection<Variant> vCollection2 = variantDao.findBySubjectPatientId(projectId, patientId);

    assertTrue(vCollection2.isEmpty());

    super.runAsAdmin();
    // test removing permissions

    // authorizedUsername is in groupName
    projectManager.alterGroupWritePermissions(projectName, groupName, false);

    // make sure authorizedUsername does not have read access to all the stuff in a project after security change
    TransactionTemplate tt3 = new TransactionTemplate(transactionManager);
    tt3.execute(new TransactionCallbackWithoutResult() {
        @Override
        public void doInTransactionWithoutResult(TransactionStatus status) {

            Project project = projectDao.findByProjectName(projectName);

            assertFalse(securityService.isViewableByUser(project, authorizedUsername));

            Subject subject = project.getSubjects().iterator().next();

            assertFalse(securityService.isViewableByUser(subject, authorizedUsername));

            variantDao.findBySubjectPatientId(project.getId(), patientId);

            // for ( Variant v : variantCollection ) {
            //
            // assertFalse( securityService.isViewableByUser( v, authorizedUsername ) );
            //
            // assertFalse( securityService.isViewableByUser( v.getCharacteristics().iterator().next(),
            // authorizedUsername ) );
            // }

        }
    });

    // test out a couple of dao methods to make sure authorizedUsername has no access
    super.runAsUser(authorizedUsername);

    try {
        projectId = projectDao.findByProjectName(projectName).getId();
        fail("should have got Access Denied");
    } catch (AccessDeniedException e) {

    }

    Collection<Variant> vCollection3 = variantDao.findBySubjectPatientId(projectId, patientId);

    assertTrue(vCollection3.isEmpty());

    super.runAsAdmin();

    try {

        projectManager.deleteProject(projectName);

    } catch (Exception e) {
        log.error(e.getLocalizedMessage(), e);

    }

}

From source file:xc.mst.repo.DefaultRepository.java

public void installOrUpdateIfNecessary(final String previousVersion, final String currentVersion) {
    final Repository thisthis = this;
    this.transactionTemplate.execute(new TransactionCallbackWithoutResult() {
        protected void doInTransactionWithoutResult(TransactionStatus status) {
            try {
                LOG.debug("config.getProperty(\"version\"): " + config.getProperty("version"));
                if (previousVersion == null && currentVersion != null
                        && (currentVersion.startsWith("0.3.") || currentVersion.startsWith("1."))) {
                    getRepositoryDAO().createTables(thisthis);
                }/* w w w  .jav a 2  s  .c  om*/
            } catch (Throwable t) {
                LOG.error("", t);
                status.setRollbackOnly();
            }
        }
    });
}