diff --git a/settings/repository/edu.mit.broad/picard-private-parts-2662.jar b/settings/repository/edu.mit.broad/picard-private-parts-2872.jar
similarity index 68%
rename from settings/repository/edu.mit.broad/picard-private-parts-2662.jar
rename to settings/repository/edu.mit.broad/picard-private-parts-2872.jar
index 54ef6d5e2..b6e685684 100644
Binary files a/settings/repository/edu.mit.broad/picard-private-parts-2662.jar and b/settings/repository/edu.mit.broad/picard-private-parts-2872.jar differ
diff --git a/settings/repository/edu.mit.broad/picard-private-parts-2662.xml b/settings/repository/edu.mit.broad/picard-private-parts-2872.xml
similarity index 63%
rename from settings/repository/edu.mit.broad/picard-private-parts-2662.xml
rename to settings/repository/edu.mit.broad/picard-private-parts-2872.xml
index 119255e8d..677d27d80 100644
--- a/settings/repository/edu.mit.broad/picard-private-parts-2662.xml
+++ b/settings/repository/edu.mit.broad/picard-private-parts-2872.xml
@@ -1,3 +1,3 @@
 <ivy-module version="1.0">
-    <info organisation="edu.mit.broad" module="picard-private-parts" revision="2662" status="integration" publication="" />
+    <info organisation="edu.mit.broad" module="picard-private-parts" revision="2872" status="integration" publication="" />
 </ivy-module>
diff --git a/settings/repository/net.sf/picard-1.84.1337.xml b/settings/repository/net.sf/picard-1.84.1337.xml
deleted file mode 100644
index 99f746ff6..000000000
--- a/settings/repository/net.sf/picard-1.84.1337.xml
+++ /dev/null
@@ -1,3 +0,0 @@
-<ivy-module version="1.0">
-    <info organisation="net.sf" module="picard" revision="1.84.1337" status="release" />
-</ivy-module>
diff --git a/settings/repository/net.sf/picard-1.84.1337.jar b/settings/repository/net.sf/picard-1.90.1442.jar
similarity index 75%
rename from settings/repository/net.sf/picard-1.84.1337.jar
rename to settings/repository/net.sf/picard-1.90.1442.jar
index 68db41848..caf2bc09d 100644
Binary files a/settings/repository/net.sf/picard-1.84.1337.jar and b/settings/repository/net.sf/picard-1.90.1442.jar differ
diff --git a/settings/repository/net.sf/picard-1.90.1442.xml b/settings/repository/net.sf/picard-1.90.1442.xml
new file mode 100644
index 000000000..4ec267817
--- /dev/null
+++ b/settings/repository/net.sf/picard-1.90.1442.xml
@@ -0,0 +1,3 @@
+<ivy-module version="1.0">
+    <info organisation="net.sf" module="picard" revision="1.90.1442" status="release" />
+</ivy-module>
diff --git a/settings/repository/net.sf/sam-1.84.1337.xml b/settings/repository/net.sf/sam-1.84.1337.xml
deleted file mode 100644
index 4d31fe250..000000000
--- a/settings/repository/net.sf/sam-1.84.1337.xml
+++ /dev/null
@@ -1,3 +0,0 @@
-<ivy-module version="1.0">
-    <info organisation="net.sf" module="sam" revision="1.84.1337" status="release" />
-</ivy-module>
diff --git a/settings/repository/net.sf/sam-1.84.1337.jar b/settings/repository/net.sf/sam-1.90.1442.jar
similarity index 86%
rename from settings/repository/net.sf/sam-1.84.1337.jar
rename to settings/repository/net.sf/sam-1.90.1442.jar
index 3d28e1928..f6e003657 100644
Binary files a/settings/repository/net.sf/sam-1.84.1337.jar and b/settings/repository/net.sf/sam-1.90.1442.jar differ
diff --git a/settings/repository/net.sf/sam-1.90.1442.xml b/settings/repository/net.sf/sam-1.90.1442.xml
new file mode 100644
index 000000000..918ea6ff0
--- /dev/null
+++ b/settings/repository/net.sf/sam-1.90.1442.xml
@@ -0,0 +1,3 @@
+<ivy-module version="1.0">
+    <info organisation="net.sf" module="sam" revision="1.90.1442" status="release" />
+</ivy-module>
diff --git a/settings/repository/org.broad/tribble-1.84.1337.jar b/settings/repository/org.broad/tribble-1.90.1442.jar
similarity index 74%
rename from settings/repository/org.broad/tribble-1.84.1337.jar
rename to settings/repository/org.broad/tribble-1.90.1442.jar
index a4c336101..75b4c2fc5 100644
Binary files a/settings/repository/org.broad/tribble-1.84.1337.jar and b/settings/repository/org.broad/tribble-1.90.1442.jar differ
diff --git a/settings/repository/org.broad/tribble-1.84.1337.xml b/settings/repository/org.broad/tribble-1.90.1442.xml
similarity index 76%
rename from settings/repository/org.broad/tribble-1.84.1337.xml
rename to settings/repository/org.broad/tribble-1.90.1442.xml
index f14af794e..01b944fe4 100644
--- a/settings/repository/org.broad/tribble-1.84.1337.xml
+++ b/settings/repository/org.broad/tribble-1.90.1442.xml
@@ -1,3 +1,3 @@
 <ivy-module version="1.0">
-    <info organisation="org.broad" module="tribble" revision="1.84.1337" status="integration" />
+    <info organisation="org.broad" module="tribble" revision="1.90.1442" status="integration" />
 </ivy-module>
diff --git a/settings/repository/org.broadinstitute/variant-1.88.1401.jar b/settings/repository/org.broadinstitute/variant-1.90.1442.jar
similarity index 96%
rename from settings/repository/org.broadinstitute/variant-1.88.1401.jar
rename to settings/repository/org.broadinstitute/variant-1.90.1442.jar
index 688c6ae17..cf06f592e 100644
Binary files a/settings/repository/org.broadinstitute/variant-1.88.1401.jar and b/settings/repository/org.broadinstitute/variant-1.90.1442.jar differ
diff --git a/settings/repository/org.broadinstitute/variant-1.88.1401.xml b/settings/repository/org.broadinstitute/variant-1.90.1442.xml
similarity index 71%
rename from settings/repository/org.broadinstitute/variant-1.88.1401.xml
rename to settings/repository/org.broadinstitute/variant-1.90.1442.xml
index 5db78b1e4..3838b8b6f 100644
--- a/settings/repository/org.broadinstitute/variant-1.88.1401.xml
+++ b/settings/repository/org.broadinstitute/variant-1.90.1442.xml
@@ -1,3 +1,3 @@
 <ivy-module version="1.0">
-    <info organisation="org.broadinstitute" module="variant" revision="1.88.1401" status="integration" />
+    <info organisation="org.broadinstitute" module="variant" revision="1.90.1442" status="integration" />
 </ivy-module>