[GLT-3995] renamed analysis and release steps

oicr-gsi · Sep 18, 2023 · d206fb9 · d206fb9
1 parent 4884390
commit d206fb9
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diff --git a/changes/change_gate_renames.md b/changes/change_gate_renames.md
@@ -0,0 +1,4 @@
+Renamed steps:
+* Informatics Review -> Analysis Review
+* Draft Report -> Release Approval
+* Final Report -> Release
diff --git a/docs/user_manual/details.md b/docs/user_manual/details.md
@@ -24,9 +24,9 @@ The Details page includes tables detailing the following:
 - Library Preparations
 - Library Qualifications
 - Full Depth Sequencings
-- Informatics Review
-- Draft Report
-- Final Report
+- Analysis Review
+- Release Approvals
+- Releases
 
 Navigate through each of the tables using the tabbed bar at the top of the page.
 

diff --git a/docs/user_manual/qc_dashboard.md b/docs/user_manual/qc_dashboard.md
@@ -45,7 +45,7 @@ page in a new tab.
 Displays the case start date and total turn-around time. Start date is the earliest receipt date of
 the tumour sample(s) involved in the case. For ongoing cases, the turn-around time is the number of
 days from the start date until the current date. For completed cases, the turn-around time is the
-number of days from the start date until the Final Report sign-off.
+number of days from the start date until the Release sign-off.
 
 ### Test
 
@@ -63,9 +63,9 @@ The following are QC gate columns, and their associated items:
 | Library Preparation   | Libraries                                                 |
 | Library Qualification | Library aliquots or run-libraries, depending on the assay |
 | Full-Depth Sequencing | Run-libraries                                             |
-| Informatics Review    | Requisition-level QC                                      |
-| Draft Report          | Requisition-level QC                                      |
-| Final Report          | Requisition-level QC                                      |
+| Analysis Review       | Requisition-level QC                                      |
+| Release Approvals     | Requisition-level QC                                      |
+| Releases              | Requisition-level QC                                      |
 
 Each QC gate cell includes icons representing the QC status of each item relevant to that gate. A
 checkmark represents an item that has passed QC, while an 'X' represents a QC failure. Click the

diff --git a/pom.xml b/pom.xml
@@ -138,7 +138,7 @@
     <dependency>
       <groupId>ca.on.oicr.gsi.cardea</groupId>
       <artifactId>cardea-data</artifactId>
-      <version>1.4.0</version>
+      <version>1.4.1-SNAPSHOT</version>
     </dependency>
   </dependencies>
 

diff --git a/src/main/java/ca/on/oicr/gsi/dimsum/CaseLoader.java b/src/main/java/ca/on/oicr/gsi/dimsum/CaseLoader.java
@@ -261,31 +261,31 @@ && anySamplesMatch(test.getFullDepthSequencings(), dateFilters)) {
       }
     }
 
-    // informatics review
-    if (CompletedGate.INFORMATICS_REVIEW.qualifyCase(kase)
-        && anyRequisitionQcsMatch(kase.getRequisition().getInformaticsReviews(), dateFilters)) {
-      caseSummary.informaticsCompletedCount(testSize);
+    // analysis review
+    if (CompletedGate.ANALYSIS_REVIEW.qualifyCase(kase)
+        && anyRequisitionQcsMatch(kase.getRequisition().getAnalysisReviews(), dateFilters)) {
+      caseSummary.analysisReviewCompletedCount(testSize);
     }
-    if (PendingState.INFORMATICS_REVIEW.qualifyCase(kase) && !kase.isStopped()) {
-      caseSummary.informaticsPendingCount(testSize);
+    if (PendingState.ANALYSIS_REVIEW.qualifyCase(kase) && !kase.isStopped()) {
+      caseSummary.analysisReviewPendingCount(testSize);
     }
 
-    // draft report
-    if (CompletedGate.DRAFT_REPORT.qualifyCase(kase)
-        && anyRequisitionQcsMatch(kase.getRequisition().getDraftReports(), dateFilters)) {
-      caseSummary.draftReportCompletedCount(testSize);
+    // release approval
+    if (CompletedGate.RELEASE_APPROVAL.qualifyCase(kase)
+        && anyRequisitionQcsMatch(kase.getRequisition().getReleaseApprovals(), dateFilters)) {
+      caseSummary.releaseApprovalCompletedCount(testSize);
     }
-    if (PendingState.DRAFT_REPORT.qualifyCase(kase) && !kase.isStopped()) {
-      caseSummary.draftReportPendingCount(testSize);
+    if (PendingState.RELEASE_APPROVAL.qualifyCase(kase) && !kase.isStopped()) {
+      caseSummary.releaseApprovalPendingCount(testSize);
     }
 
-    // final report
-    if (CompletedGate.FINAL_REPORT.qualifyCase(kase)
-        && anyRequisitionQcsMatch(kase.getRequisition().getFinalReports(), dateFilters)) {
-      caseSummary.finalReportCompletedCount(testSize);
+    // release
+    if (CompletedGate.RELEASE.qualifyCase(kase)
+        && anyRequisitionQcsMatch(kase.getRequisition().getReleases(), dateFilters)) {
+      caseSummary.releaseCompletedCount(testSize);
     }
-    if (PendingState.FINAL_REPORT.qualifyCase(kase) && !kase.isStopped()) {
-      caseSummary.finalReportPendingCount(testSize);
+    if (PendingState.RELEASE.qualifyCase(kase) && !kase.isStopped()) {
+      caseSummary.releasePendingCount(testSize);
     }
 
     // add the counts to each project in the case if the project exists in the