diff --git a/tool_conf.xml.sample b/tool_conf.xml.sample
index 8f616f889d0..27c5a1fc1c8 100644
--- a/tool_conf.xml.sample
+++ b/tool_conf.xml.sample
@@ -95,6 +95,7 @@
     <tool file="maf/maf_to_interval.xml" />
     <tool file="maf/maf_to_fasta.xml" />
     <tool file="fasta_tools/tabular_to_fasta.xml" />
+    <tool file="fastq/fastq_to_fasta.xml" />
     <tool file="filters/wiggle_to_simple.xml" />
     <tool file="filters/sff_extractor.xml" />
     <tool file="filters/gtf2bedgraph.xml" />