diff --git a/tools/cnvkit/macros.xml b/tools/cnvkit/macros.xml
index fbe778a6bbb..07db8288506 100644
--- a/tools/cnvkit/macros.xml
+++ b/tools/cnvkit/macros.xml
@@ -1,10 +1,10 @@
 <macros>
-    <token name="@VERSION_SUFFIX@">1</token>
-    <token name="@TOOL_VERSION@">0.9.11</token>
+    <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@TOOL_VERSION@">0.9.12</token>
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="@TOOL_VERSION@">cnvkit</requirement>
-            <requirement type="package" version="1.4.2">scikit-learn</requirement>
+            <requirement type="package" version="1.6.0">scikit-learn</requirement>
         </requirements>
     </xml>
     <xml name="reference_interface">