Examples with TissueMaterialImpl uk.ac.bbsrc.tgac.miso.core.data.impl.TissueMaterialImpl used on opensource projects

Example 1 with TissueMaterialImpl

use of uk.ac.bbsrc.tgac.miso.core.data.impl.TissueMaterialImpl in project miso-lims by miso-lims.

the class Dtos method to.

public static TissueMaterial to(@Nonnull TissueMaterialDto from) {
    TissueMaterial to = new TissueMaterialImpl();
    setLong(to::setId, from.getId(), false);
    setString(to::setAlias, from.getAlias());
    return to;
}

Example 2 with TissueMaterialImpl

use of uk.ac.bbsrc.tgac.miso.core.data.impl.TissueMaterialImpl in project miso-lims by miso-lims.

the class Dtos method toTissueSample.

private static SampleTissue toTissueSample(@Nonnull SampleTissueDto from) {
    SampleTissue to = new SampleTissueImpl();
    to.setPassageNumber(from.getPassageNumber());
    to.setTimesReceived(from.getTimesReceived());
    to.setTubeNumber(from.getTubeNumber());
    to.setRegion(nullifyStringIfBlank(from.getRegion()));
    to.setSecondaryIdentifier(from.getSecondaryIdentifier());
    if (from.getTissueOriginId() != null) {
        TissueOrigin tissueOrigin = new TissueOriginImpl();
        tissueOrigin.setId(from.getTissueOriginId());
        to.setTissueOrigin(tissueOrigin);
    }
    if (from.getTissueTypeId() != null) {
        TissueType tissueType = new TissueTypeImpl();
        tissueType.setId(from.getTissueTypeId());
        to.setTissueType(tissueType);
    }
    if (from.getTissueMaterialId() != null) {
        TissueMaterial tissueMaterial = new TissueMaterialImpl();
        tissueMaterial.setId(from.getTissueMaterialId());
        to.setTissueMaterial(tissueMaterial);
    }
    if (from.getLabId() != null) {
        Lab lab = new LabImpl();
        lab.setId(from.getLabId());
        to.setLab(lab);
    }
    setString(to::setTimepoint, from.getTimepoint());
    return to;
}

Example 3 with TissueMaterialImpl

use of uk.ac.bbsrc.tgac.miso.core.data.impl.TissueMaterialImpl in project miso-lims by miso-lims.

the class MetricDto method to.

public Metric to() {
    Metric to = new Metric();
    setLong(to::setId, getId(), false);
    setString(to::setAlias, getAlias());
    setObject(to::setCategory, getCategory(), MetricCategory::valueOf);
    setObject(to::setSubcategory, MetricSubcategory::new, getSubcategoryId());
    setObject(to::setThresholdType, getThresholdType(), ThresholdType::valueOf);
    setString(to::setUnits, getUnits());
    setInteger(to::setSortPriority, getSortPriority(), true);
    setObject(to::setNucleicAcidType, getNucleicAcidType(), NucleicAcidType::valueOf);
    setObject(to::setTissueMaterial, TissueMaterialImpl::new, getTissueMaterialId());
    setObject(to::setTissueType, TissueTypeImpl::new, getTissueTypeId());
    setBoolean(to::setNegateTissueType, isNegateTissueType(), false);
    setObject(to::setTissueOrigin, TissueOriginImpl::new, getTissueOriginId());
    setObject(to::setContainerModel, SequencingContainerModel::new, getContainerModelId());
    setInteger(to::setReadLength, getReadLength(), true);
    setInteger(to::setReadLength2, getReadLength2(), true);
    return to;
}

Example 4 with TissueMaterialImpl

use of uk.ac.bbsrc.tgac.miso.core.data.impl.TissueMaterialImpl in project miso-lims by miso-lims.

the class HibernateTissueMaterialDaoIT method getCreateItem.

@Override
public TissueMaterial getCreateItem() {
    TissueMaterial material = new TissueMaterialImpl();
    material.setAlias("New Mat");
    User user = (User) currentSession().get(UserImpl.class, 1L);
    material.setChangeDetails(user);
    return material;
}