Update several ETLs

Author: bbimber

PMR/resources/etls/pmr-datasets.xml

@@ -141,6 +141,8 @@
                     <column>relationship</column>
                     <column>method</column>
                     <column>objectid</column>
+                    <column>created</column>
+                    <column>modified</column>
                 </sourceColumns>
                 <sourceFilters>
                     <sourceFilter column="QCState/Label" operator="eq" value="Completed"/>
@@ -171,6 +173,8 @@
                     <column>conception</column>
                     <column>conceptualDay</column>
                     <column>objectid</column>
+                    <column>created</column>
+                    <column>modified</column>
                 </sourceColumns>
                 <sourceFilters>
                     <sourceFilter column="QCState/Label" operator="eq" value="Completed"/>

PMR/resources/etls/pmr-demographics.xml

@@ -17,6 +17,8 @@
                     <column>calculated_status</column>
                     <column>QCState/Label</column>
                     <column>objectid</column>
+                    <column>created</column>
+                    <column>modified</column>
                 </sourceColumns>
             </source>
             <destination schemaName="study" queryName="demographics" targetOption="truncate" bulkLoad="true" batchSize="2500">

mGAP/resources/etls/prime-seq.xml

@@ -60,13 +60,17 @@
                     <column>source</column>
                     <column>description</column>
                     <column>isprimarytrack</column>
+                    <column>shouldindex</column>
+                    <column>vcfIndexId/dataid/DataFileUrl</column>
+                    <column>vcfIndexId/library_id/name</column>
                     <column>vcfId/dataid/DataFileUrl</column>
                     <column>vcfId/library_id/name</column>
                 </sourceColumns>
             </source>
             <destination schemaName="mGAP" queryName="tracksPerRelease" bulkLoad="true" targetOption="truncate">
                 <columnTransforms>
                     <column source="vcfId/dataid/DataFileUrl" target="vcfId" transformClass="org.labkey.mgap.columnTransforms.TrackOutputFileTransform" />
+                    <column source="vcfIndexId/dataid/DataFileUrl" target="vcfIndexId" transformClass="org.labkey.mgap.columnTransforms.TrackOutputFileTransform" />
                 </columnTransforms>
             </destination>
         </transform>