[MISC] Require arguments for count.

seqan · Aug 17, 2023 · fc9cbbe · fc9cbbe
1 parent fb32036
commit fc9cbbe
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/src/main.cpp b/src/main.cpp
@@ -104,7 +104,7 @@ int run_needle_count(seqan3::argument_parser & parser)
                                     "for all sequences in the genome file based on the exact minimiser occurrences of "
                                     "the given sequence files. Please run genome beforehand to create the genome file.";
     parser.add_positional_option(sequence_files, "Please provide at least one sequence file.");
-    parser.add_option(include_file, '\0', "include", "Please provide one sequence file with transcripts.");
+    parser.add_option(include_file, '\0', "include", "Please provide one sequence file with transcripts.",seqan3::option_spec::required);
     parser.add_option(genome_file, '\0', "genome", "Please provide one *.genome file created with the genome command.");
     parser.add_flag(paired, 'p', "paired", "If set, experiments are paired. Default: Not paired.");
 

diff --git a/test/cli/count_options_test.cpp b/test/cli/count_options_test.cpp
@@ -28,7 +28,7 @@ TEST_F(count_options_test, no_options)
 
 TEST_F(count_options_test, fail_no_argument)
 {
-    cli_test_result result = execute_app("needle count", "--seed 0");
+    cli_test_result result = execute_app("needle count", "--seed 0 --genome", data("mini_gen.genome")," --include", data("mini_gen.fasta"));
     std::string expected
     {
         "Error. Incorrect command line input for count. Not enough positional arguments provided "