diff --git a/tools/goseq/goseq.xml b/tools/goseq/goseq.xml
index acbb970e42b..6584dde3fbc 100644
--- a/tools/goseq/goseq.xml
+++ b/tools/goseq/goseq.xml
@@ -5,7 +5,7 @@
         <xref type="bioconductor">goseq</xref>
     </xrefs>
     <macros>
-        <token name="@TOOL_VERSION@">1.50.0</token>
+        <token name="@TOOL_VERSION@">1.54.0</token>
         <token name="@VERSION_SUFFIX@">0</token>
     </macros>
     <edam_topics>
@@ -16,15 +16,15 @@
     </edam_operations>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">bioconductor-goseq</requirement>
-        <requirement type="package" version="3.16.0">bioconductor-org.hs.eg.db</requirement>
-        <requirement type="package" version="3.16.0">bioconductor-org.dm.eg.db</requirement>
-        <requirement type="package" version="3.16.0">bioconductor-org.dr.eg.db</requirement>
-        <requirement type="package" version="3.16.0">bioconductor-org.mm.eg.db</requirement>
-        <requirement type="package" version="3.16.0">bioconductor-org.rn.eg.db</requirement>
-        <requirement type="package" version="1.0.10">r-dplyr</requirement>
-        <requirement type="package" version="3.4.0">r-ggplot2</requirement>
-        <requirement type="package" version="1.7.3">r-optparse</requirement>
-        <requirement type="package" version="1.1.1s">openssl</requirement>
+        <requirement type="package" version="3.18.0">bioconductor-org.hs.eg.db</requirement>
+        <requirement type="package" version="3.18.0">bioconductor-org.dm.eg.db</requirement>
+        <requirement type="package" version="3.18.0">bioconductor-org.dr.eg.db</requirement>
+        <requirement type="package" version="3.20.0">bioconductor-org.mm.eg.db</requirement>
+        <requirement type="package" version="3.18.0">bioconductor-org.rn.eg.db</requirement>
+        <requirement type="package" version="1.1.4">r-dplyr</requirement>
+        <requirement type="package" version="3.5.1">r-ggplot2</requirement>
+        <requirement type="package" version="1.7.5">r-optparse</requirement>
+        <requirement type="package" version="3.4.0">openssl</requirement>
     </requirements>
     <stdio>
         <regex match="Execution halted"