+++ /dev/null
-/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
- *
- * This file is part of Jalview.
- *
- * Jalview is free software: you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation, either version 3
- * of the License, or (at your option) any later version.
- *
- * Jalview is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty
- * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
- * PURPOSE. See the GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License
- * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
- * The Jalview Authors are detailed in the 'AUTHORS' file.
- */
-
-package jalview.ws.uimodel;
-
-import jalview.bin.Cache;
-import jalview.datamodel.SequenceI;
-import jalview.ws.dbsources.PDBRestClient.PDBDocField;
-
-import java.util.Collection;
-
-/**
- * Represents the PDB request to be consumed by the PDBRestClient
- *
- * @author tcnofoegbu
- *
- */
-public class PDBRestRequest
-{
- private String fieldToSearchBy;
-
- private String searchTerm;
-
- private String fieldToSortBy;
-
- private SequenceI associatedSequence;
-
- private boolean allowEmptySequence;
-
- private boolean allowUnpublishedEntries = Cache.getDefault(
- "ALLOW_UNPUBLISHED_PDB_QUERYING", false);
-
- private boolean facet;
-
- private String facetPivot;
-
- private int facetPivotMinCount;
-
- private int responseSize;
-
- private boolean isSortAscending;
-
- private Collection<PDBDocField> wantedFields;
-
- public String getFieldToSearchBy()
- {
- return fieldToSearchBy;
- }
-
- public void setFieldToSearchBy(String fieldToSearchBy)
- {
- this.fieldToSearchBy = fieldToSearchBy;
- }
-
- public String getSearchTerm()
- {
- return searchTerm;
- }
-
- public void setSearchTerm(String searchTerm)
- {
- this.searchTerm = searchTerm;
- }
-
- public boolean isAllowEmptySeq()
- {
- return allowEmptySequence;
- }
-
- public void setAllowEmptySeq(boolean allowEmptySeq)
- {
- this.allowEmptySequence = allowEmptySeq;
- }
-
- public int getResponseSize()
- {
- return responseSize;
- }
-
- public void setResponseSize(int responseSize)
- {
- this.responseSize = responseSize;
- }
-
- public Collection<PDBDocField> getWantedFields()
- {
- return wantedFields;
- }
-
- public void setWantedFields(Collection<PDBDocField> wantedFields)
- {
- this.wantedFields = wantedFields;
- }
-
- public String getFieldToSortBy()
- {
- return fieldToSortBy;
- }
-
- public void setFieldToSortBy(String fieldToSortBy, boolean isSortAscending)
- {
- this.fieldToSortBy = fieldToSortBy;
- this.isSortAscending = isSortAscending;
- }
-
- public boolean isAscending()
- {
- return isSortAscending;
- }
-
- public SequenceI getAssociatedSequence()
- {
- return associatedSequence;
- }
-
- public void setAssociatedSequence(SequenceI associatedSequence)
- {
- this.associatedSequence = associatedSequence;
- }
-
- public String getQuery()
- {
- return fieldToSearchBy + searchTerm
- + (isAllowEmptySeq() ? "" : " AND molecule_sequence:['' TO *]")
- + (isAllowUnpublishedEntries() ? "" : " AND status:REL");
- }
-
- @Override
- public String toString()
- {
- return "Query : " + getQuery() + " sort field: " + fieldToSortBy
- + " isAsc: " + isAscending() + " Associated Seq : "
- + associatedSequence;
- }
-
- public boolean isAllowUnpublishedEntries()
- {
- return allowUnpublishedEntries;
- }
-
- public void setAllowUnpublishedEntries(boolean allowUnpublishedEntries)
- {
- this.allowUnpublishedEntries = allowUnpublishedEntries;
- }
-
- public boolean isFacet()
- {
- return facet;
- }
-
- public void setFacet(boolean facet)
- {
- this.facet = facet;
- }
-
- public String getFacetPivot()
- {
- return facetPivot;
- }
-
- public void setFacetPivot(String facetPivot)
- {
- this.facetPivot = facetPivot;
- }
-
- public int getFacetPivotMinCount()
- {
- return facetPivotMinCount;
- }
-
- public void setFacetPivotMinCount(int facetPivotMinCount)
- {
- this.facetPivotMinCount = facetPivotMinCount;
- }
-}