diff --git a/covidseq/build.gradle b/covidseq/build.gradle
index e3ba9c308..bd42286c4 100644
--- a/covidseq/build.gradle
+++ b/covidseq/build.gradle
@@ -4,6 +4,18 @@ plugins {
     id 'org.labkey.build.module'
 }
 
+repositories {
+    mavenCentral()
+    // Added for org.clojars.chapmanb:sam dependency required by com.github.samtools:htsjdk
+    maven {
+        url "https://clojars.org/repo"
+    }
+    // Added for org.clojars.chapmanb:sam (required by SequenceAnalysis)
+    maven {
+        url "https://maven.scijava.org/content/groups/public"
+    }
+}
+
 dependencies {
     BuildUtils.addLabKeyDependency(project: project, config: "implementation", depProjectPath: ":server:modules:LabDevKitModules:laboratory", depProjectConfig: "apiJarFile")
     BuildUtils.addLabKeyDependency(project: project, config: "implementation", depProjectPath: ":server:modules:LabDevKitModules:LDK", depProjectConfig: "apiJarFile")
diff --git a/primeseq/build.gradle b/primeseq/build.gradle
index 1a8b44122..94625804e 100644
--- a/primeseq/build.gradle
+++ b/primeseq/build.gradle
@@ -6,6 +6,10 @@ repositories {
     maven {
         url "https://clojars.org/repo"
     }
+    // Added for org.clojars.chapmanb:sam (required by SequenceAnalysis)
+    maven {
+        url "https://maven.scijava.org/content/groups/public"
+    }
 }
 
 dependencies {
diff --git a/tcrdb/build.gradle b/tcrdb/build.gradle
index 0afa638f6..8b8bf57da 100644
--- a/tcrdb/build.gradle
+++ b/tcrdb/build.gradle
@@ -7,6 +7,10 @@ repositories {
    maven {
       url "https://clojars.org/repo"
    }
+   // Added for org.clojars.chapmanb:sam (required by SequenceAnalysis)
+   maven {
+      url "https://maven.scijava.org/content/groups/public"
+   }
 }
 
 dependencies {
diff --git a/variantdb/build.gradle b/variantdb/build.gradle
index 56292bf8f..5095b8beb 100644
--- a/variantdb/build.gradle
+++ b/variantdb/build.gradle
@@ -8,6 +8,10 @@ repositories {
       maven {
             url "https://clojars.org/repo"
       }
+      // Added for org.clojars.chapmanb:sam (required by SequenceAnalysis)
+      maven {
+            url "https://maven.scijava.org/content/groups/public"
+      }
 }
 
 dependencies {