package net.sourceforge.seqware.common.dao;
import java.util.List;
import net.sourceforge.seqware.common.model.File;
import net.sourceforge.seqware.common.model.IUS;
import net.sourceforge.seqware.common.model.Registration;
import net.sourceforge.seqware.common.model.Study;
/**
* <p>
* IUSDAO interface.
* </p>
*
* @author boconnor
* @version $Id: $Id
*/
public interface IUSDAO {
/**
* <p>
* insert.
* </p>
*
* @param obj
* a {@link net.sourceforge.seqware.common.model.IUS} object.
* @return
*/
public Integer insert(IUS obj);
/**
* <p>
* insert.
* </p>
*
* @param registration
* a {@link net.sourceforge.seqware.common.model.Registration} object.
* @param obj
* a {@link net.sourceforge.seqware.common.model.IUS} object.
* @return
*/
public Integer insert(Registration registration, IUS obj);
/**
* <p>
* update.
* </p>
*
* @param obj
* a {@link net.sourceforge.seqware.common.model.IUS} object.
*/
public void update(IUS obj);
/**
* <p>
* update.
* </p>
*
* @param registration
* a {@link net.sourceforge.seqware.common.model.Registration} object.
* @param ius
* a {@link net.sourceforge.seqware.common.model.IUS} object.
*/
public void update(Registration registration, IUS ius);
/**
* <p>
* delete.
* </p>
*
* @param obj
* a {@link net.sourceforge.seqware.common.model.IUS} object.
*/
public void delete(IUS obj);
/**
* <p>
* findByID.
* </p>
*
* @param id
* a {@link java.lang.Integer} object.
* @return a {@link net.sourceforge.seqware.common.model.IUS} object.
*/
public IUS findByID(Integer id);
/**
* <p>
* getFiles.
* </p>
*
* @param iusId
* a {@link java.lang.Integer} object.
* @return a {@link java.util.List} object.
*/
public List<File> getFiles(Integer iusId);
/**
* <p>
* isHasFile.
* </p>
*
* @param iusId
* a {@link java.lang.Integer} object.
* @return a boolean.
*/
public boolean isHasFile(Integer iusId);
/**
* <p>
* getFiles.
* </p>
*
* @param iusId
* a {@link java.lang.Integer} object.
* @param metaType
* a {@link java.lang.String} object.
* @return a {@link java.util.List} object.
*/
public List<File> getFiles(Integer iusId, String metaType);
/**
* <p>
* isHasFile.
* </p>
*
* @param iusId
* a {@link java.lang.Integer} object.
* @param metaType
* a {@link java.lang.String} object.
* @return a boolean.
*/
public boolean isHasFile(Integer iusId, String metaType);
/**
* <p>
* findBySWAccession.
* </p>
*
* @param swAccession
* a {@link java.lang.Integer} object.
* @return a {@link net.sourceforge.seqware.common.model.IUS} object.
*/
public IUS findBySWAccession(Integer swAccession);
/**
* <p>
* updateDetached.
* </p>
*
* @param ius
* a {@link net.sourceforge.seqware.common.model.IUS} object.
* @return a {@link net.sourceforge.seqware.common.model.IUS} object.
*/
public IUS updateDetached(IUS ius);
/**
* <p>
* updateDetached.
* </p>
*
* @param registration
* a {@link net.sourceforge.seqware.common.model.Registration} object.
* @param ius
* a {@link net.sourceforge.seqware.common.model.IUS} object.
* @return a {@link net.sourceforge.seqware.common.model.IUS} object.
*/
public IUS updateDetached(Registration registration, IUS ius);
/**
* <p>
* findByOwnerID.
* </p>
*
* @param registrationId
* a {@link java.lang.Integer} object.
* @return a {@link java.util.List} object.
*/
public List<IUS> findByOwnerID(Integer registrationId);
/**
* <p>
* findByCriteria.
* </p>
*
* @param criteria
* a {@link java.lang.String} object.
* @param isCaseSens
* a boolean.
* @return a {@link java.util.List} object.
*/
public List<IUS> findByCriteria(String criteria, boolean isCaseSens);
/**
* <p>
* findBelongsToStudy.
* </p>
*
* @param study
* a {@link net.sourceforge.seqware.common.model.Study} object.
* @return a {@link java.util.List} object.
*/
public List<IUS> findBelongsToStudy(Study study);
/**
* <p>
* find.
* </p>
*
* @param sequencerRunName
* a {@link java.lang.String} object.
* @param lane
* a {@link java.lang.Integer} object.
* @param sampleName
* a {@link java.lang.String} object.
* @return a {@link java.util.List} object.
*/
public List<IUS> find(String sequencerRunName, Integer lane, String sampleName);
/**
* <p>
* list.
* </p>
*
* @return a {@link java.util.List} object.
*/
public List<IUS> list();
}