From 64fb50c0ea7eb2d27806aec322cc3f99920f025f Mon Sep 17 00:00:00 2001
From: Cristian Goina <goinac@hhmi.org>
Date: Wed, 22 May 2024 18:25:06 -0400
Subject: [PATCH] annotations and excluded annotations was missing from the
 mipIds lookup

---
 .../colormipsearch/dataio/db/DBNeuronMatchesReader.java       | 4 +++-
 colormipsearch-tools/pom.xml                                  | 4 ++--
 2 files changed, 5 insertions(+), 3 deletions(-)

diff --git a/colormipsearch-persist/src/main/java/org/janelia/colormipsearch/dataio/db/DBNeuronMatchesReader.java b/colormipsearch-persist/src/main/java/org/janelia/colormipsearch/dataio/db/DBNeuronMatchesReader.java
index 2941e8a6..1d706948 100644
--- a/colormipsearch-persist/src/main/java/org/janelia/colormipsearch/dataio/db/DBNeuronMatchesReader.java
+++ b/colormipsearch-persist/src/main/java/org/janelia/colormipsearch/dataio/db/DBNeuronMatchesReader.java
@@ -48,7 +48,9 @@ public List<String> listMatchesLocations(Collection<DataSourceParam> matchesSour
                                         .addNames(cdMatchInput.getNames())
                                         .addTags(cdMatchInput.getTags())
                                         .addExcludedTags(cdMatchInput.getExcludedTags())
-                                        .addDatasetLabels(cdMatchInput.getDatasets()),
+                                        .addDatasetLabels(cdMatchInput.getDatasets())
+                                        .addAnnotations(cdMatchInput.getAnnotations())
+                                        .addExcludedAnnotations(cdMatchInput.getExcludedAnnotations()),
                                 new PagedRequest()
                                         .setFirstPageOffset(cdMatchInput.getOffset())
                                         .setPageSize(cdMatchInput.getSize())
diff --git a/colormipsearch-tools/pom.xml b/colormipsearch-tools/pom.xml
index 94a0ae18..474cb882 100644
--- a/colormipsearch-tools/pom.xml
+++ b/colormipsearch-tools/pom.xml
@@ -38,12 +38,12 @@
         <dependency>
             <groupId>org.apache.logging.log4j</groupId>
             <artifactId>log4j-api</artifactId>
-            <version>2.20.0</version>
+            <version>2.23.1</version>
         </dependency>
         <dependency>
             <groupId>org.apache.logging.log4j</groupId>
             <artifactId>log4j-core</artifactId>
-            <version>2.20.0</version>
+            <version>2.23.1</version>
         </dependency>
         <dependency>
             <groupId>org.apache.commons</groupId>