diff --git a/modules/local/svprep/assemble/main.nf b/modules/local/svprep/assemble/main.nf
index bdcf88a0..8d18a515 100644
--- a/modules/local/svprep/assemble/main.nf
+++ b/modules/local/svprep/assemble/main.nf
@@ -69,7 +69,7 @@ process GRIDSS_ASSEMBLE {
     done
 
     # Symlink indices next to assembly FASTA
-    ln -s \$(find -L ${genome_gridss_index} -regex '.*\.\(amb\|ann\|pac\|gridsscache\|sa\|bwt\|img\|alt\)') ./
+    ln -s \$(find -L ${genome_gridss_index} -regex '.*\\.\\(amb\\|ann\\|pac\\|gridsscache\\|sa\\|bwt\\|img\\|alt\\)') ./
 
     # Run
     gridss_svprep \\
diff --git a/modules/local/svprep/call/main.nf b/modules/local/svprep/call/main.nf
index 5afcac73..775df9c6 100644
--- a/modules/local/svprep/call/main.nf
+++ b/modules/local/svprep/call/main.nf
@@ -67,7 +67,7 @@ process GRIDSS_CALL {
     shadow_input_directory ${assemble_dir}
 
     # Symlink indices next to assembly FASTA
-    ln -s \$(find -L ${genome_gridss_index} -regex '.*\.\(amb\|ann\|pac\|gridsscache\|sa\|bwt\|img\|alt\)') ./
+    ln -s \$(find -L ${genome_gridss_index} -regex '.*\\.\\(amb\\|ann\\|pac\\|gridsscache\\|sa\\|bwt\\|img\\|alt\\)') ./
 
     # Run
     gridss_svprep \\
diff --git a/modules/local/svprep/preprocess/main.nf b/modules/local/svprep/preprocess/main.nf
index ffc1200e..c3313ee8 100644
--- a/modules/local/svprep/preprocess/main.nf
+++ b/modules/local/svprep/preprocess/main.nf
@@ -29,7 +29,7 @@ process GRIDSS_PREPROCESS {
 
     """
     # Symlink indices next to assembly FASTA
-    ln -s \$(find -L ${genome_gridss_index} -regex '.*\.\(amb\|ann\|pac\|gridsscache\|sa\|bwt\|img\|alt\)') ./
+    ln -s \$(find -L ${genome_gridss_index} -regex '.*\\.\\(amb\\|ann\\|pac\\|gridsscache\\|sa\\|bwt\\|img\\|alt\\)') ./
 
     gridss_svprep \\
         ${args} \\
diff --git a/modules/local/virusbreakend/main.nf b/modules/local/virusbreakend/main.nf
index 225e26b0..93f90c1f 100644
--- a/modules/local/virusbreakend/main.nf
+++ b/modules/local/virusbreakend/main.nf
@@ -29,7 +29,7 @@ process VIRUSBREAKEND {
 
     """
     # Symlink indices next to assembly FASTA
-    ln -s \$(find -L ${genome_gridss_index} -regex '.*\.\(amb\|ann\|pac\|gridsscache\|sa\|bwt\|img\|alt\)') ./
+    ln -s \$(find -L ${genome_gridss_index} -regex '.*\\.\\(amb\\|ann\\|pac\\|gridsscache\\|sa\\|bwt\\|img\\|alt\\)') ./
 
     virusbreakend \\
         ${args} \\