diff --git a/lib/buildFileList.sh b/lib/buildFileList.sh
index a8452a2f..1a79a882 100755
--- a/lib/buildFileList.sh
+++ b/lib/buildFileList.sh
@@ -487,7 +487,7 @@ function BuildFileList() {
     ###########################
     # Get the SNAKEMAKE files #
     ###########################
-    elif [ "${FILE_TYPE}" == "smk" ]; then
+    elif [ "${FILE_TYPE}" == "smk" ] || [ "${BASE_FILE}" == "Snakefile" ]; then
       ################################
       # Append the file to the array #
       ################################
diff --git a/lib/linter.sh b/lib/linter.sh
index 64a8ed36..2a47b7cd 100755
--- a/lib/linter.sh
+++ b/lib/linter.sh
@@ -315,6 +315,7 @@ FILE_ARRAY_PYTHON_FLAKE8=()       # Array of files to check
 FILE_ARRAY_R=()                   # Array of files to check
 FILE_ARRAY_RAKU=()                # Array of files to check
 FILE_ARRAY_RUBY=()                # Array of files to check
+FILE_ARRAY_SNAKEMAKE=()           # Array of files to check
 FILE_ARRAY_STATES=()              # Array of files to check
 FILE_ARRAY_SQL=()                 # Array of files to check
 FILE_ARRAY_TERRAFORM=()           # Array of files to check