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-rw-r--r--training/atools.cc11
1 files changed, 5 insertions, 6 deletions
diff --git a/training/atools.cc b/training/atools.cc
index 42579627..82e30c38 100644
--- a/training/atools.cc
+++ b/training/atools.cc
@@ -8,7 +8,6 @@
#include <boost/shared_ptr.hpp>
#include "filelib.h"
-#include "aligner.h"
#include "alignment_pharaoh.h"
namespace po = boost::program_options;
@@ -79,7 +78,7 @@ struct FMeasureCommand : public Command {
struct DisplayCommand : public Command {
string Name() const { return "display"; }
bool RequiresTwoOperands() const { return false; }
- void Apply(const Array2D<bool>& in, const Array2D<bool>&not_used, Array2D<bool>* x) {
+ void Apply(const Array2D<bool>& in, const Array2D<bool>&, Array2D<bool>* x) {
*x = in;
cout << *x << endl;
}
@@ -88,7 +87,7 @@ struct DisplayCommand : public Command {
struct ConvertCommand : public Command {
string Name() const { return "convert"; }
bool RequiresTwoOperands() const { return false; }
- void Apply(const Array2D<bool>& in, const Array2D<bool>&not_used, Array2D<bool>* x) {
+ void Apply(const Array2D<bool>& in, const Array2D<bool>&, Array2D<bool>* x) {
*x = in;
}
};
@@ -96,7 +95,7 @@ struct ConvertCommand : public Command {
struct InvertCommand : public Command {
string Name() const { return "invert"; }
bool RequiresTwoOperands() const { return false; }
- void Apply(const Array2D<bool>& in, const Array2D<bool>&not_used, Array2D<bool>* x) {
+ void Apply(const Array2D<bool>& in, const Array2D<bool>&, Array2D<bool>* x) {
Array2D<bool>& res = *x;
res.resize(in.height(), in.width());
for (int i = 0; i < in.height(); ++i)
@@ -275,8 +274,8 @@ void InitCommandLine(int argc, char** argv, po::variables_map* conf) {
}
string cstr = os.str();
opts.add_options()
- ("input_1,i", po::value<string>(), "[REQ] Alignment 1 file, - for STDIN")
- ("input_2,j", po::value<string>(), "[OPT] Alignment 2 file, - for STDIN")
+ ("input_1,i", po::value<string>(), "[REQUIRED] Alignment 1 file, - for STDIN")
+ ("input_2,j", po::value<string>(), "Alignment 2 file, - for STDIN")
("command,c", po::value<string>()->default_value("convert"), cstr.c_str())
("help,h", "Print this help message and exit");
po::options_description clo("Command line options");