metrics for file type fields in assays and datasets (#7003)

Author: labkey-klum

experiment/src/org/labkey/experiment/ExperimentModule.java

@@ -630,6 +630,20 @@ WHERE op.propertyid IN (
                     assayMetrics.put("standardAssayRunsWithPlateTemplate", new SqlSelector(schema, new SQLFragment(runsWithPlateSQL).add("PlateTemplate").add("PlateTemplate")).getObject(Long.class));
                     assayMetrics.put("standardAssayRunsWithPlateSet", new SqlSelector(schema, new SQLFragment(runsWithPlateSQL).add("PlateSet").add("PlateSet")).getObject(Long.class));
 
+                    assayMetrics.put("assayRunsFileColumnCount", new SqlSelector(schema, """
+                        SELECT COUNT(DISTINCT DD.DomainURI) FROM
+                             exp.PropertyDescriptor D\s
+                                 JOIN exp.PropertyDomain PD ON D.propertyId = PD.propertyid
+                                 JOIN exp.DomainDescriptor DD on PD.domainID = DD.domainId
+                        WHERE DD.domainUri LIKE ? AND D.rangeURI = ?""", "urn:lsid:%:" + ExpProtocol.AssayDomainTypes.Run.getPrefix() + ".%", PropertyType.FILE_LINK.getTypeUri()).getObject(Long.class));
+
+                    assayMetrics.put("assayResultsFileColumnCount", new SqlSelector(schema, """
+                        SELECT COUNT(DISTINCT DD.DomainURI) FROM
+                             exp.PropertyDescriptor D\s
+                                 JOIN exp.PropertyDomain PD ON D.propertyId = PD.propertyid
+                                 JOIN exp.DomainDescriptor DD on PD.domainID = DD.domainId
+                        WHERE DD.domainUri LIKE ? AND D.rangeURI = ?""", "urn:lsid:%:" + ExpProtocol.AssayDomainTypes.Result.getPrefix() + ".%", PropertyType.FILE_LINK.getTypeUri()).getObject(Long.class));
+
                     Map<String, Object> sampleLookupCountMetrics = new HashMap<>();
                     SQLFragment baseAssaySampleLookupSQL = new SQLFragment("SELECT COUNT(*) FROM exp.propertydescriptor WHERE (lookupschema = 'samples' OR (lookupschema = 'exp' AND lookupquery =  'Materials')) AND propertyuri LIKE ?");
 

study/src/org/labkey/study/StudyModule.java

@@ -35,6 +35,7 @@
 import org.labkey.api.data.dialect.SqlDialect;
 import org.labkey.api.data.views.DataViewService;
 import org.labkey.api.exp.LsidManager;
+import org.labkey.api.exp.PropertyType;
 import org.labkey.api.exp.api.ExperimentService;
 import org.labkey.api.exp.property.PropertyService;
 import org.labkey.api.files.FileContentService;
@@ -458,6 +459,13 @@ protected void startupAfterSpringConfig(ModuleContext moduleContext)
                 metric.put("participantIdMappingCount", new SqlSelector(StudySchema.getInstance().getSchema(), "SELECT COUNT(DISTINCT container) FROM study.Participant WHERE AlternateId IS NOT NULL").getObject(Long.class));
                 metric.put("participantAliasCount", new SqlSelector(StudySchema.getInstance().getSchema(), "SELECT COUNT(*) FROM study.Study WHERE ParticipantAliasDatasetId IS NOT NULL").getObject(Long.class));
 
+                metric.put("datasetsWithFileColumnCount", new SqlSelector(StudySchema.getInstance().getSchema(), """
+                        SELECT COUNT(DISTINCT DD.DomainURI) FROM
+                             exp.PropertyDescriptor D\s
+                                 JOIN exp.PropertyDomain PD ON D.propertyId = PD.propertyid
+                                 JOIN exp.DomainDescriptor DD on PD.domainID = DD.domainId
+                        WHERE DD.storageSchemaName = ? AND D.rangeURI = ?""", StudySchema.getInstance().getDatasetSchemaName(), PropertyType.FILE_LINK.getTypeUri()).getObject(Long.class));
+
                 // grab the counts of report and dataset notification settings (by notification option)
                 Collection<? extends StudyImpl> allStudies = StudyManager.getInstance().getAllStudies();
                 Map<ReportContentEmailManager.NotifyOption, Integer> notifyOptionCounts = new HashMap<>();