Commit 2d253307 authored by Haowen Zhang's avatar Haowen Zhang
Browse files

Seperate chromap and its driver.

parent 83c4ca3d

Makefile

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@@ -2,7 +2,7 @@ CXX=g++ 
CXXFLAGS=-std=c++11 -Wall -O3 -fopenmp -msse4.1

LDFLAGS=-lm -lz



cpp_source=sequence_batch.cc index.cc candidate_processor.cc alignment.cc feature_barcode_matrix.cc ksw.cc mapping_writer.cc chromap.cc

cpp_source=sequence_batch.cc index.cc candidate_processor.cc alignment.cc feature_barcode_matrix.cc ksw.cc mapping_writer.cc chromap.cc chromap_driver.cc

src_dir=src

objs_dir=objs

objs+=$(patsubst %.cc,$(objs_dir)/%.o,$(cpp_source))

src/chromap.cc

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src/chromap.h

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@@ -31,13 +31,6 @@ 


namespace chromap {



class ChromapDriver {

 public:

  ChromapDriver() {}

  ~ChromapDriver() {}

  void ParseArgsAndRun(int argc, char *argv[]);

};



class Chromap {

 public:

  // For index construction

src/chromap_driver.cc

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src/chromap_driver.h

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#ifndef CHROMAP_DRIVER_H_

#define CHROMAP_DRIVER_H_



namespace chromap {



class ChromapDriver {

 public:

  ChromapDriver() = default;

  ~ChromapDriver() = default;

  void ParseArgsAndRun(int argc, char *argv[]);

};



}  // namespace chromap



#endif  // CHROMAP_DRIVER_H_

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