Adjust comments

src/gffread/test.sh

@@ -17,7 +17,7 @@ mkdir -p "$test_output_dir"
 echo "> Test 1 - Read annotation file, output GFF" 
 
 "$meta_executable" \
-  -E \
+  --expose_dups \
   --input "$test_dir/annotation.gff" \
   -o "$test_output_dir/ann_simple.gff" 
 
@@ -31,8 +31,8 @@ echo ">> Check if output is empty"
 
 echo ">> Compare output to expected output"
 
-# Not comparing header lines, they are not in the same order and reference file
-# was created with a different version of gffread.
+# Not comparing header lines as they are not in the same order 
+# (reference file was created with gffred version 11.8 instead of 12.7).
 diff <(grep -v '^#' "$expected_output_dir/ann_simple.gff") \
     <(grep -v '^#' "$test_output_dir/ann_simple.gff") || \
     (echo "Output file ann_simple.gff does not match expected output" && exit 1)
@@ -57,8 +57,8 @@ echo ">> Check if output is empty"
 
 echo ">> Compare output to expected output"
 
-# remove trailing semicolons from the files
-# Difference in trailing semicolon presence might be due to reference output 
+# removing trailing semicolons from the files
+# Difference in trailing semicolon presence possibly due to reference output 
 # being generated by gffred version 11.8 instead of 12.7.
 sed -i 's/;$/''/' "$expected_output_dir/annotation.gtf"
 sed -i 's/;$/''/' "$test_output_dir/annotation.gtf"
@@ -109,8 +109,7 @@ echo ">> Compare output to expected output"
 diff "$expected_output_dir/annotation.tbl" "$test_output_dir/annotation.tbl" || \
     (echo "Output file annotation.tbl does not match expected output" && exit 1)
 
-# reference output annotation.tbl was created manually since it was not included
-# in the original test data.
+# reference output annotation.tbl was created manually with gffread 0.12.7
 
 ################################################################################