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<div class="subTitle">edu.ucsb.nceas.metacat</div>
<h2 title="Class IdentifierManager" class="title">Class IdentifierManager</h2>
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<ul class="inheritance">
<li>java.lang.Object</li>
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<li>edu.ucsb.nceas.metacat.IdentifierManager</li>
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<pre>public class <span class="typeNameLabel">IdentifierManager</span>
extends java.lang.Object</pre>
<div class="block">Manage the relationship between Metacat local identifiers (LocalIDs) that are
codified as the (docid, rev) pair with globally unique string identifiers
(GUIDs) that are opaque strings. This class provides methods to manage these
identifiers, and to search for and look up LocalIDs based on their GUID and
vice versa. IdentifierManager is a singleton.</div>
<dl>
<dt><span class="simpleTagLabel">Author:</span></dt>
<dd>Matthew Jones</dd>
</dl>
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<h3>Field Summary</h3>
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<caption><span>Fields</span><span class="tabEnd"> </span></caption>
<tr>
<th class="colFirst" scope="col">Modifier and Type</th>
<th class="colLast" scope="col">Field and Description</th>
</tr>
<tr class="altColor">
<td class="colFirst"><code>static java.lang.String</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#TYPE_IDENTIFIER">TYPE_IDENTIFIER</a></span></code> </td>
</tr>
<tr class="rowColor">
<td class="colFirst"><code>static java.lang.String</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#TYPE_SYSTEM_METADATA">TYPE_SYSTEM_METADATA</a></span></code> </td>
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<h3>Method Summary</h3>
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<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span class="tabEnd"> </span></span><span id="t1" class="tableTab"><span><a href="javascript:show(1);">Static Methods</a></span><span class="tabEnd"> </span></span><span id="t2" class="tableTab"><span><a href="javascript:show(2);">Instance Methods</a></span><span class="tabEnd"> </span></span><span id="t4" class="tableTab"><span><a href="javascript:show(8);">Concrete Methods</a></span><span class="tabEnd"> </span></span></caption>
<tr>
<th class="colFirst" scope="col">Modifier and Type</th>
<th class="colLast" scope="col">Method and Description</th>
</tr>
<tr id="i0" class="altColor">
<td class="colFirst"><code>java.util.List<org.dataone.service.types.v1.Permission></code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#convertPermission-int-">convertPermission</a></span>(int permission)</code> </td>
</tr>
<tr id="i1" class="rowColor">
<td class="colFirst"><code>int</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#convertPermission-org.dataone.service.types.v1.Permission-">convertPermission</a></span>(org.dataone.service.types.v1.Permission permission)</code> </td>
</tr>
<tr id="i2" class="altColor">
<td class="colFirst"><code>void</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#createMapping-java.lang.String-java.lang.String-">createMapping</a></span>(java.lang.String guid,
java.lang.String localId)</code>
<div class="block">create a mapping in the identifier table</div>
</td>
</tr>
<tr id="i3" class="rowColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#deleteSystemMetadata-java.lang.String-">deleteSystemMetadata</a></span>(java.lang.String guid)</code> </td>
</tr>
<tr id="i4" class="altColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#existsInIdentifierTable-org.dataone.service.types.v1.Identifier-">existsInIdentifierTable</a></span>(org.dataone.service.types.v1.Identifier pid)</code>
<div class="block">Determine if the given pid exists on the identifier table.</div>
</td>
</tr>
<tr id="i5" class="rowColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#existsInXmlLRevisionTable-java.lang.String-int-">existsInXmlLRevisionTable</a></span>(java.lang.String docid,
int rev)</code>
<div class="block">IF the given localId exists on the xml_revisions table</div>
</td>
</tr>
<tr id="i6" class="altColor">
<td class="colFirst"><code>java.lang.String</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#generateLocalId-java.lang.String-int-">generateLocalId</a></span>(java.lang.String guid,
int rev)</code> </td>
</tr>
<tr id="i7" class="rowColor">
<td class="colFirst"><code>java.lang.String</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#generateLocalId-java.lang.String-int-boolean-">generateLocalId</a></span>(java.lang.String guid,
int rev,
boolean isSystemMetadata)</code>
<div class="block">Given a global identifier (guid), create a suitable local identifier that
follows Metacat's docid semantics and format (scope.id.rev), and create
a mapping between these two identifiers.</div>
</td>
</tr>
<tr id="i8" class="altColor">
<td class="colFirst"><code>org.dataone.service.types.v1.AccessPolicy</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getAccessPolicy-java.lang.String-">getAccessPolicy</a></span>(java.lang.String guid)</code>
<div class="block">Lookup access policy from Metacat</div>
</td>
</tr>
<tr id="i9" class="rowColor">
<td class="colFirst"><code>java.util.List<java.lang.String></code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getAllLocalIds--">getAllLocalIds</a></span>()</code>
<div class="block">return a listing of all local ids in the object store</div>
</td>
</tr>
<tr id="i10" class="altColor">
<td class="colFirst"><code>java.util.List<java.lang.String></code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getAllSystemMetadataGUIDs--">getAllSystemMetadataGUIDs</a></span>()</code>
<div class="block">return a listing of all guids in the object store</div>
</td>
</tr>
<tr id="i11" class="rowColor">
<td class="colFirst"><code>java.lang.String</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getGUID-java.lang.String-int-">getGUID</a></span>(java.lang.String docid,
int rev)</code>
<div class="block">given a local identifer, look up the guid.</div>
</td>
</tr>
<tr id="i12" class="altColor">
<td class="colFirst"><code>java.util.List<java.lang.String></code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getGUIDs-java.lang.String-java.lang.String-java.lang.String-">getGUIDs</a></span>(java.lang.String formatId,
java.lang.String nodeId,
java.lang.String scheme)</code>
<div class="block">Get the list of identifiers which system metadata matches the given format id and original member node id and guid or series id start with the scheme (doi for example).</div>
</td>
</tr>
<tr id="i13" class="rowColor">
<td class="colFirst"><code>org.dataone.service.types.v1.Identifier</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getHeadPID-org.dataone.service.types.v1.Identifier-">getHeadPID</a></span>(org.dataone.service.types.v1.Identifier sid)</code>
<div class="block">Get the pid of the head (current) version of objects match the specified sid.</div>
</td>
</tr>
<tr id="i14" class="altColor">
<td class="colFirst"><code>static <a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html" title="class in edu.ucsb.nceas.metacat">IdentifierManager</a></code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getInstance--">getInstance</a></span>()</code>
<div class="block">Return the single instance of the manager after initializing it if it
wasn't previously initialized.</div>
</td>
</tr>
<tr id="i15" class="rowColor">
<td class="colFirst"><code>java.util.Date</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getLastModifiedDate--">getLastModifiedDate</a></span>()</code>
<div class="block">returns a list of system metadata-only guids since the given date</div>
</td>
</tr>
<tr id="i16" class="altColor">
<td class="colFirst"><code>int</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getLatestRevForLocalId-java.lang.String-">getLatestRevForLocalId</a></span>(java.lang.String localId)</code>
<div class="block">return the newest rev for a given localId</div>
</td>
</tr>
<tr id="i17" class="rowColor">
<td class="colFirst"><code>java.lang.String</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getLocalId-java.lang.String-">getLocalId</a></span>(java.lang.String guid)</code>
<div class="block">Lookup a localId given the GUID.</div>
</td>
</tr>
<tr id="i18" class="altColor">
<td class="colFirst"><code>java.util.List<java.lang.String></code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getLocalIdsWithNoSystemMetadata-boolean-int-">getLocalIdsWithNoSystemMetadata</a></span>(boolean includeRevisions,
int serverLocation)</code>
<div class="block">return all local ids in the object store that do not have associated
system metadata</div>
</td>
</tr>
<tr id="i19" class="rowColor">
<td class="colFirst"><code>java.lang.String</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getObjectFilePath-java.lang.String-boolean-">getObjectFilePath</a></span>(java.lang.String localId,
boolean isScienceMetadata)</code>
<div class="block">Get the the file path for the given object local id</div>
</td>
</tr>
<tr id="i20" class="altColor">
<td class="colFirst"><code>org.dataone.service.types.v2.SystemMetadata</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getSystemMetadata-java.lang.String-">getSystemMetadata</a></span>(java.lang.String guid)</code>
<div class="block">return a hash of all of the info that is in the systemmetadata table</div>
</td>
</tr>
<tr id="i21" class="rowColor">
<td class="colFirst"><code>java.util.List<java.lang.String></code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#getUpdatedSystemMetadataIds-java.util.Date-">getUpdatedSystemMetadataIds</a></span>(java.util.Date since)</code>
<div class="block">returns a list of system metadata-only guids since the given date</div>
</td>
</tr>
<tr id="i22" class="altColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#identifierExists-java.lang.String-">identifierExists</a></span>(java.lang.String guid)</code>
<div class="block">Determine if an identifier exists already, returning true if so.</div>
</td>
</tr>
<tr id="i23" class="rowColor">
<td class="colFirst"><code>void</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#insertOrUpdateSystemMetadata-org.dataone.service.types.v2.SystemMetadata-">insertOrUpdateSystemMetadata</a></span>(org.dataone.service.types.v2.SystemMetadata sysmeta)</code>
<div class="block">creates a system metadata mapping and adds additional fields from sysmeta
to the table for quick searching.</div>
</td>
</tr>
<tr id="i24" class="altColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#mappingExists-java.lang.String-">mappingExists</a></span>(java.lang.String guid)</code>
<div class="block">Determine if an identifier mapping exists already,
returning true if so.</div>
</td>
</tr>
<tr id="i25" class="rowColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#objectFileExists-java.lang.String-boolean-">objectFileExists</a></span>(java.lang.String localId,
boolean isScienceMetadata)</code>
<div class="block">Determine if the object file exist for the given localId.</div>
</td>
</tr>
<tr id="i26" class="altColor">
<td class="colFirst"><code>org.dataone.service.types.v1.ObjectList</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#querySystemMetadata-java.util.Date-java.util.Date-org.dataone.service.types.v1.ObjectFormatIdentifier-org.dataone.service.types.v1.NodeReference-int-int-org.dataone.service.types.v1.Identifier-boolean-">querySystemMetadata</a></span>(java.util.Date startTime,
java.util.Date endTime,
org.dataone.service.types.v1.ObjectFormatIdentifier objectFormatId,
org.dataone.service.types.v1.NodeReference nodeId,
int start,
int count,
org.dataone.service.types.v1.Identifier identifier,
boolean isSID)</code>
<div class="block">query the systemmetadata table based on the given parameters</div>
</td>
</tr>
<tr id="i27" class="rowColor">
<td class="colFirst"><code>void</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#removeMapping-java.lang.String-java.lang.String-">removeMapping</a></span>(java.lang.String guid,
java.lang.String localId)</code>
<div class="block">remove a mapping in the identifier table</div>
</td>
</tr>
<tr id="i28" class="altColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#systemMetadataPIDExists-org.dataone.service.types.v1.Identifier-">systemMetadataPIDExists</a></span>(org.dataone.service.types.v1.Identifier pid)</code>
<div class="block">Determine if the specified identifier object exists or not.</div>
</td>
</tr>
<tr id="i29" class="rowColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#systemMetadataPIDExists-java.lang.String-">systemMetadataPIDExists</a></span>(java.lang.String guid)</code> </td>
</tr>
<tr id="i30" class="altColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#systemMetadataSIDExists-org.dataone.service.types.v1.Identifier-">systemMetadataSIDExists</a></span>(org.dataone.service.types.v1.Identifier sid)</code>
<div class="block">Check if the specified sid object exists on the serial id field on the system metadata table</div>
</td>
</tr>
<tr id="i31" class="rowColor">
<td class="colFirst"><code>boolean</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#systemMetadataSIDExists-java.lang.String-">systemMetadataSIDExists</a></span>(java.lang.String sid)</code>
<div class="block">Check if the specified sid exists on the serial id field on the system metadata table</div>
</td>
</tr>
<tr id="i32" class="altColor">
<td class="colFirst"><code>void</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#updateAuthoritativeMemberNodeId-java.lang.String-java.lang.String-">updateAuthoritativeMemberNodeId</a></span>(java.lang.String existingMemberNodeId,
java.lang.String newMemberNodeId)</code> </td>
</tr>
<tr id="i33" class="rowColor">
<td class="colFirst"><code>void</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#updateMapping-java.lang.String-java.lang.String-">updateMapping</a></span>(java.lang.String guid,
java.lang.String localId)</code>
<div class="block">update a mapping</div>
</td>
</tr>
<tr id="i34" class="altColor">
<td class="colFirst"><code>void</code></td>
<td class="colLast"><code><span class="memberNameLink"><a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html#updateSystemMetadata-org.dataone.service.types.v2.SystemMetadata-edu.ucsb.nceas.metacat.database.DBConnection-">updateSystemMetadata</a></span>(org.dataone.service.types.v2.SystemMetadata sm,
<a href="../../../../edu/ucsb/nceas/metacat/database/DBConnection.html" title="class in edu.ucsb.nceas.metacat.database">DBConnection</a> dbConn)</code>
<div class="block">Insert the system metadata fields into the db</div>
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<code>clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait</code></li>
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<h4>TYPE_SYSTEM_METADATA</h4>
<pre>public static final java.lang.String TYPE_SYSTEM_METADATA</pre>
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<dt><span class="seeLabel">See Also:</span></dt>
<dd><a href="../../../../constant-values.html#edu.ucsb.nceas.metacat.IdentifierManager.TYPE_SYSTEM_METADATA">Constant Field Values</a></dd>
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<h4>TYPE_IDENTIFIER</h4>
<pre>public static final java.lang.String TYPE_IDENTIFIER</pre>
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<dd><a href="../../../../constant-values.html#edu.ucsb.nceas.metacat.IdentifierManager.TYPE_IDENTIFIER">Constant Field Values</a></dd>
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<pre>public static <a href="../../../../edu/ucsb/nceas/metacat/IdentifierManager.html" title="class in edu.ucsb.nceas.metacat">IdentifierManager</a> getInstance()</pre>
<div class="block">Return the single instance of the manager after initializing it if it
wasn't previously initialized.</div>
<dl>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>the single IdentifierManager instance</dd>
</dl>
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<h4>getSystemMetadata</h4>
<pre>public org.dataone.service.types.v2.SystemMetadata getSystemMetadata(java.lang.String guid)
throws <a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></pre>
<div class="block">return a hash of all of the info that is in the systemmetadata table</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></code></dd>
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<a name="getLatestRevForLocalId-java.lang.String-">
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<h4>getLatestRevForLocalId</h4>
<pre>public int getLatestRevForLocalId(java.lang.String localId)
throws <a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></pre>
<div class="block">return the newest rev for a given localId</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>localId</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></code></dd>
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<h4>getLocalIdsWithNoSystemMetadata</h4>
<pre>public java.util.List<java.lang.String> getLocalIdsWithNoSystemMetadata(boolean includeRevisions,
int serverLocation)</pre>
<div class="block">return all local ids in the object store that do not have associated
system metadata</div>
</li>
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<a name="getAllLocalIds--">
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<h4>getAllLocalIds</h4>
<pre>public java.util.List<java.lang.String> getAllLocalIds()</pre>
<div class="block">return a listing of all local ids in the object store</div>
<dl>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>a list of all local ids in metacat</dd>
</dl>
</li>
</ul>
<a name="getAllSystemMetadataGUIDs--">
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<h4>getAllSystemMetadataGUIDs</h4>
<pre>public java.util.List<java.lang.String> getAllSystemMetadataGUIDs()</pre>
<div class="block">return a listing of all guids in the object store</div>
<dl>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>a list of all GUIDs in metacat</dd>
</dl>
</li>
</ul>
<a name="getUpdatedSystemMetadataIds-java.util.Date-">
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<h4>getUpdatedSystemMetadataIds</h4>
<pre>public java.util.List<java.lang.String> getUpdatedSystemMetadataIds(java.util.Date since)
throws java.lang.Exception</pre>
<div class="block">returns a list of system metadata-only guids since the given date</div>
<dl>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>a list of system ids in metacat that do not correspond to objects
TODO: need to check which server they are on</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.lang.Exception</code></dd>
</dl>
</li>
</ul>
<a name="getLastModifiedDate--">
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<h4>getLastModifiedDate</h4>
<pre>public java.util.Date getLastModifiedDate()
throws java.lang.Exception</pre>
<div class="block">returns a list of system metadata-only guids since the given date</div>
<dl>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>a list of system ids in metacat that do not correspond to objects
TODO: need to check which server they are on</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.lang.Exception</code></dd>
</dl>
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<h4>identifierExists</h4>
<pre>public boolean identifierExists(java.lang.String guid)
throws java.sql.SQLException</pre>
<div class="block">Determine if an identifier exists already, returning true if so.
NOTE: looks in the identifier and system metadata table for a match
(in that order) Can return true for both PIDs and SIDs.</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - the global identifier to look up</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>boolean true if the identifier exists</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
</dl>
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</ul>
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<h4>mappingExists</h4>
<pre>public boolean mappingExists(java.lang.String guid)
throws java.sql.SQLException</pre>
<div class="block">Determine if an identifier mapping exists already,
returning true if so.</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - the global identifier to look up</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>boolean true if the identifier exists</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
</dl>
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<h4>generateLocalId</h4>
<pre>public java.lang.String generateLocalId(java.lang.String guid,
int rev)</pre>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - </dd>
<dd><code>rev</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
</dl>
</li>
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<h4>generateLocalId</h4>
<pre>public java.lang.String generateLocalId(java.lang.String guid,
int rev,
boolean isSystemMetadata)</pre>
<div class="block">Given a global identifier (guid), create a suitable local identifier that
follows Metacat's docid semantics and format (scope.id.rev), and create
a mapping between these two identifiers. This effectively reserves both
the global and the local identifier, as they will now be present in the
identifier mapping table.
REMOVED feature: If the incoming guid has the syntax of a
Metacat docid (scope.id.rev), then simply use it.
WHY: because "test.1.001" becomes "test.1.1" which is not correct for DataONE
identifier use (those revision numbers are just chartacters and should not be interpreted)</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - the global string identifier</dd>
<dd><code>rev</code> - the revision number to be used in the localId</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>String containing the localId to be used for Metacat operations</dd>
</dl>
</li>
</ul>
<a name="getGUID-java.lang.String-int-">
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<h4>getGUID</h4>
<pre>public java.lang.String getGUID(java.lang.String docid,
int rev)
throws <a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></pre>
<div class="block">given a local identifer, look up the guid. Throw McdbDocNotFoundException
if the docid, rev is not found in the identifiers or systemmetadata tables</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>docid</code> - the docid to look up</dd>
<dd><code>rev</code> - the revision of the docid to look up</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>String containing the mapped guid</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></code> - if the docid, rev is not found</dd>
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<h4>getGUIDs</h4>
<pre>public java.util.List<java.lang.String> getGUIDs(java.lang.String formatId,
java.lang.String nodeId,
java.lang.String scheme)</pre>
<div class="block">Get the list of identifiers which system metadata matches the given format id and original member node id and guid or series id start with the scheme (doi for example).</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>formatId</code> - the format id of the identifier must match the given formatId.</dd>
<dd><code>nodeId</code> - the original member node of the identifier must match the given nodeId.</dd>
<dd><code>scheme</code> - the guid or series id must start with the given scheme (doi for exampe)</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>the list of identifier string. An empty list will be returned if nothing was found.</dd>
</dl>
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<h4>getHeadPID</h4>
<pre>public org.dataone.service.types.v1.Identifier getHeadPID(org.dataone.service.types.v1.Identifier sid)
throws java.sql.SQLException</pre>
<div class="block">Get the pid of the head (current) version of objects match the specified sid.
1. locate all candidate chain-ends for S1:
determined by: seriesId == S1 AND (obsoletedBy == null OR obsoletedBy.seriesId != S1) // these are the type1 and type2 ends
If obsoletedBy is missing, we generally consider it a type 2 end except:
there is another object in the chain (has the same series id) that obsoletes the missing object.
2. if only 1 candidate chain-end, return it as the HEAD
3. otherwise return the one in the chain with the latest dateUploaded value. However, we find that dateUpload doesn't refect the obsoletes information
(espically on the cn), so we will check osoletes information as well. https://redmine.dataone.org/issues/7624</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>sid</code> - specified sid which should match.</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>the pid of the head version. The null will be returned if there is no pid found.</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
</dl>
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</ul>
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<pre>public boolean systemMetadataSIDExists(org.dataone.service.types.v1.Identifier sid)
throws java.sql.SQLException</pre>
<div class="block">Check if the specified sid object exists on the serial id field on the system metadata table</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>sid</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>true if it exists; false otherwise.</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
</dl>
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<pre>public boolean systemMetadataSIDExists(java.lang.String sid)
throws java.sql.SQLException</pre>
<div class="block">Check if the specified sid exists on the serial id field on the system metadata table</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>id</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>true if it exists; false otherwise.</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
</dl>
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</ul>
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<h4>systemMetadataPIDExists</h4>
<pre>public boolean systemMetadataPIDExists(org.dataone.service.types.v1.Identifier pid)
throws java.sql.SQLException</pre>
<div class="block">Determine if the specified identifier object exists or not.</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>pid</code> - - the specified identifier</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>true if it is exists.</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
<dd><code>java.lang.NullPointerException</code></dd>
</dl>
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<h4>systemMetadataPIDExists</h4>
<pre>public boolean systemMetadataPIDExists(java.lang.String guid)
throws java.sql.SQLException</pre>
<dl>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
</dl>
</li>
</ul>
<a name="insertOrUpdateSystemMetadata-org.dataone.service.types.v2.SystemMetadata-">
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</a>
<ul class="blockList">
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<h4>insertOrUpdateSystemMetadata</h4>
<pre>public void insertOrUpdateSystemMetadata(org.dataone.service.types.v2.SystemMetadata sysmeta)
throws <a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a>,
java.sql.SQLException,
org.dataone.service.exceptions.InvalidSystemMetadata</pre>
<div class="block">creates a system metadata mapping and adds additional fields from sysmeta
to the table for quick searching.</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - the id to insert</dd>
<dd><code>localId</code> - the systemMetadata object to get the local id for</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></code></dd>
<dd><code>java.sql.SQLException</code></dd>
<dd><code>org.dataone.service.exceptions.InvalidSystemMetadata</code></dd>
</dl>
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<h4>updateMapping</h4>
<pre>public void updateMapping(java.lang.String guid,
java.lang.String localId)</pre>
<div class="block">update a mapping</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - </dd>
<dd><code>localId</code> - </dd>
</dl>
</li>
</ul>
<a name="updateSystemMetadata-org.dataone.service.types.v2.SystemMetadata-edu.ucsb.nceas.metacat.database.DBConnection-">
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<h4>updateSystemMetadata</h4>
<pre>public void updateSystemMetadata(org.dataone.service.types.v2.SystemMetadata sm,
<a href="../../../../edu/ucsb/nceas/metacat/database/DBConnection.html" title="class in edu.ucsb.nceas.metacat.database">DBConnection</a> dbConn)
throws <a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a>,
java.sql.SQLException,
org.dataone.service.exceptions.InvalidSystemMetadata,
<a href="../../../../edu/ucsb/nceas/metacat/shared/AccessException.html" title="class in edu.ucsb.nceas.metacat.shared">AccessException</a></pre>
<div class="block">Insert the system metadata fields into the db</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>sm</code> - </dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></code></dd>
<dd><code>java.sql.SQLException</code></dd>
<dd><code>org.dataone.service.exceptions.InvalidSystemMetadata</code></dd>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/shared/AccessException.html" title="class in edu.ucsb.nceas.metacat.shared">AccessException</a></code></dd>
</dl>
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</ul>
<a name="getAccessPolicy-java.lang.String-">
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<ul class="blockList">
<li class="blockList">
<h4>getAccessPolicy</h4>
<pre>public org.dataone.service.types.v1.AccessPolicy getAccessPolicy(java.lang.String guid)
throws <a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a>,
<a href="../../../../edu/ucsb/nceas/metacat/shared/AccessException.html" title="class in edu.ucsb.nceas.metacat.shared">AccessException</a></pre>
<div class="block">Lookup access policy from Metacat</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></code></dd>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/shared/AccessException.html" title="class in edu.ucsb.nceas.metacat.shared">AccessException</a></code></dd>
</dl>
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<ul class="blockList">
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<h4>convertPermission</h4>
<pre>public int convertPermission(org.dataone.service.types.v1.Permission permission)</pre>
</li>
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<ul class="blockList">
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<h4>convertPermission</h4>
<pre>public java.util.List<org.dataone.service.types.v1.Permission> convertPermission(int permission)</pre>
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<h4>getLocalId</h4>
<pre>public java.lang.String getLocalId(java.lang.String guid)
throws <a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a>,
java.sql.SQLException</pre>
<div class="block">Lookup a localId given the GUID. If
the identifier is not found, throw an exception.</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - the global identifier to look up</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>String containing the corresponding LocalId</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/McdbDocNotFoundException.html" title="class in edu.ucsb.nceas.metacat">McdbDocNotFoundException</a></code> - if the identifier is not found</dd>
<dd><code>java.sql.SQLException</code></dd>
</dl>
</li>
</ul>
<a name="querySystemMetadata-java.util.Date-java.util.Date-org.dataone.service.types.v1.ObjectFormatIdentifier-org.dataone.service.types.v1.NodeReference-int-int-org.dataone.service.types.v1.Identifier-boolean-">
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<h4>querySystemMetadata</h4>
<pre>public org.dataone.service.types.v1.ObjectList querySystemMetadata(java.util.Date startTime,
java.util.Date endTime,
org.dataone.service.types.v1.ObjectFormatIdentifier objectFormatId,
org.dataone.service.types.v1.NodeReference nodeId,
int start,
int count,
org.dataone.service.types.v1.Identifier identifier,
boolean isSID)
throws java.sql.SQLException,
edu.ucsb.nceas.utilities.PropertyNotFoundException,
<a href="../../../../edu/ucsb/nceas/metacat/shared/ServiceException.html" title="class in edu.ucsb.nceas.metacat.shared">ServiceException</a></pre>
<div class="block">query the systemmetadata table based on the given parameters</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>startTime</code> - </dd>
<dd><code>endTime</code> - </dd>
<dd><code>objectFormat</code> - </dd>
<dd><code>nodeId</code> - </dd>
<dd><code>start</code> - </dd>
<dd><code>count</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>ObjectList</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
<dd><code><a href="../../../../edu/ucsb/nceas/metacat/shared/ServiceException.html" title="class in edu.ucsb.nceas.metacat.shared">ServiceException</a></code></dd>
<dd><code>edu.ucsb.nceas.utilities.PropertyNotFoundException</code></dd>
</dl>
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</ul>
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<h4>createMapping</h4>
<pre>public void createMapping(java.lang.String guid,
java.lang.String localId)</pre>
<div class="block">create a mapping in the identifier table</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - </dd>
<dd><code>localId</code> - </dd>
</dl>
</li>
</ul>
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<h4>removeMapping</h4>
<pre>public void removeMapping(java.lang.String guid,
java.lang.String localId)</pre>
<div class="block">remove a mapping in the identifier table</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>guid</code> - </dd>
<dd><code>localId</code> - </dd>
</dl>
</li>
</ul>
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<h4>deleteSystemMetadata</h4>
<pre>public boolean deleteSystemMetadata(java.lang.String guid)</pre>
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<h4>updateAuthoritativeMemberNodeId</h4>
<pre>public void updateAuthoritativeMemberNodeId(java.lang.String existingMemberNodeId,
java.lang.String newMemberNodeId)</pre>
</li>
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<h4>objectFileExists</h4>
<pre>public boolean objectFileExists(java.lang.String localId,
boolean isScienceMetadata)
throws edu.ucsb.nceas.utilities.PropertyNotFoundException</pre>
<div class="block">Determine if the object file exist for the given localId.</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>localId</code> - </dd>
<dd><code>isScienceMetadata</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>edu.ucsb.nceas.utilities.PropertyNotFoundException</code></dd>
</dl>
</li>
</ul>
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<h4>getObjectFilePath</h4>
<pre>public java.lang.String getObjectFilePath(java.lang.String localId,
boolean isScienceMetadata)
throws edu.ucsb.nceas.utilities.PropertyNotFoundException</pre>
<div class="block">Get the the file path for the given object local id</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>localId</code> - </dd>
<dd><code>isScienceMetadata</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>edu.ucsb.nceas.utilities.PropertyNotFoundException</code></dd>
</dl>
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<h4>existsInXmlLRevisionTable</h4>
<pre>public boolean existsInXmlLRevisionTable(java.lang.String docid,
int rev)
throws java.sql.SQLException</pre>
<div class="block">IF the given localId exists on the xml_revisions table</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>localId</code> - </dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
</dl>
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<h4>existsInIdentifierTable</h4>
<pre>public boolean existsInIdentifierTable(org.dataone.service.types.v1.Identifier pid)
throws java.sql.SQLException</pre>
<div class="block">Determine if the given pid exists on the identifier table.</div>
<dl>
<dt><span class="paramLabel">Parameters:</span></dt>
<dd><code>pid</code> - must be a PID</dd>
<dt><span class="returnLabel">Returns:</span></dt>
<dd>true if it exists; false otherwise.</dd>
<dt><span class="throwsLabel">Throws:</span></dt>
<dd><code>java.sql.SQLException</code></dd>
</dl>
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