/* (non-Javadoc)
* @see org.genomesmanager.services.impl.snps.SnpsImporter#save()
*/
@Override
public void save() {
for (Individual i : individuals) {
individualRepository.save(i);
}
for (Snp snp : snps) {
snpRepository.save(snp);
}
}
@Test
public void test() {
Species sp = SpeciesOM.Generate(1).get(0);
speciesRepo.save(sp);
Chromosome chr = ChromosomesOM.Generate(1, sp).get(0);
chromosomeRepo.save(chr);
Sequence seq = SequencesOM.Generate(1, chr).get(0);
sequenceRepo.save(seq);
Variety variety = VarietiesOM.Generate(1, sp).get(0);
varietyRepo.save(variety);
Individual individual = IndividualsOM.Generate(1, variety).get(0);
individualRepo.save(individual);
Snp snp = SnpsOM.Generate(1, individual, seq).get(0);
snp = snpRepo.save(snp);
Snp postSnp = snpRepo.findOne(snp.getId());
assertEquals(snp, postSnp);
}
@Test
public void testGetAll() {
int nOfSnps = 7;
Species sp = SpeciesOM.Generate(1).get(0);
sp = speciesRepo.save(sp);
Chromosome chr = ChromosomesOM.Generate(1, sp).get(0);
chr = chromosomeRepo.save(chr);
Sequence seq = SequencesOM.Generate(1, chr).get(0);
seq = sequenceRepo.save(seq);
Variety variety = VarietiesOM.Generate(1, sp).get(0);
variety = varietyRepo.save(variety);
Individual individual = IndividualsOM.Generate(1, variety).get(0);
individual = individualRepo.save(individual);
for (Snp snp : SnpsOM.Generate(nOfSnps, individual, seq)) {
snp = snpRepo.save(snp);
}
assertEquals(nOfSnps, snpRepo.getAllByChromosome(chr).size());
assertEquals(nOfSnps, snpRepo.getAllBySpecies(sp).size());
}
/* (non-Javadoc)
* @see org.genomesmanager.services.impl.snps.SnpsImporter#setIndividuals(java.util.List)
*/
@Override
public void setIndividuals(List<Integer> ids) {
for (Integer id : ids) {
individuals.add(individualRepository.findOne(id));
}
}