diff --git a/tool_conf.xml.main b/tool_conf.xml.main
index a711d95bc84..485b9b16576 100644
--- a/tool_conf.xml.main
+++ b/tool_conf.xml.main
@@ -41,12 +41,10 @@
   </section>
   <section id="convert" name="Convert Formats">
     <tool file="filters/bed2gff.xml" />
-    <tool file="fasta_tools/fasta_to_tabular.xml" />
     <tool file="filters/gff2bed.xml" />
     <tool file="maf/maf_to_bed.xml" />
     <tool file="maf/maf_to_interval.xml" />
     <tool file="maf/maf_to_fasta.xml" />
-    <tool file="fasta_tools/tabular_to_fasta.xml" />
     <tool file="filters/sff_extractor.xml" />
     <tool file="filters/wig_to_bigwig.xml" />
     <tool file="filters/bed_to_bigbed.xml" />