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Remove some debug info

Change executable filename
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Giles Miclotte
Giles Miclotte committed Mar 8, 2016
1 parent 9f6cd0a commit 3ca25f8f280f9f754562e26fd1fb08760494e835
Showing with 5 additions and 8 deletions.
  1. +1 −1 compile.sh
  2. +3 −3 src/CMakeLists.txt
  3. +0 −3 src/Settings.cpp
  4. +1 −1 src/library.cpp
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@@ -6,7 +6,7 @@ cd build
make
cd ..
mkdir -p bin
cp -b ./build/src/Jabba ./bin/Jabba
cp -b ./build/src/jabba ./bin/jabba
#cd src
#doxygen ../Profiling/Doxyfile > ../Profiling/doxygen_output
#pmccabe -vt *.hpp *.cpp > ../Profiling/pmccabe_output
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@@ -1,3 +1,3 @@
add_executable(Jabba GraphChain.cpp IntraNodeChain.cpp InterNodeChain.cpp Graph.cpp SeedFinder.cpp AlignedRead.cpp Settings.cpp Nucleotide.cpp TString.cpp Alignment.cpp mummer/qsufsort.c mummer/sparseSA.cpp ReadCorrection.cpp ReadCorrectionHandler.cpp library.cpp util.cpp)
target_link_libraries(Jabba readfile pthread)
add_subdirectory(readfile)
add_executable(jabba GraphChain.cpp IntraNodeChain.cpp InterNodeChain.cpp Graph.cpp SeedFinder.cpp AlignedRead.cpp Settings.cpp Nucleotide.cpp TString.cpp Alignment.cpp mummer/qsufsort.c mummer/sparseSA.cpp ReadCorrection.cpp ReadCorrectionHandler.cpp library.cpp util.cpp)
target_link_libraries(jabba readfile pthread)
add_subdirectory(readfile)
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@@ -75,7 +75,6 @@ Settings::Settings(int argc, char** args)
} else if (arg == "-g" || arg == "--graph") {
++i;
graph_name = args[i];
std::cout << graph_name << std::endl;
} else if (arg == "-k" || arg == "--dbgk") {
++i;
dbg_k_ = std::stoi(args[i]);
@@ -111,9 +110,7 @@ Settings::Settings(int argc, char** args)
libraries_.insert(ReadLibrary(lib, directory_));
}
//
std::cout << graph_name << std::endl;
graph_ = new ReadLibrary(graph_name, "");
std::cout << "done" << std::endl;
// try to create the output directory
#ifdef _MSC_VER
CreateDirectory(directory_.c_str(), NULL);
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@@ -166,7 +166,7 @@ ReadLibrary::ReadLibrary(const std::string& inputFilename_,
};
baseFilename = std::string(std::find_if(baseFilename.rbegin(), baseFilename.rend(), MatchPathSeparator()).base(), baseFilename.end());
cout << baseFilename << "\n";
if (outputFilename.empty()) {
ostringstream oss;
oss << outputDirectory_ << "/Jabba-" << baseFilename << "." << fileType;

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