TestReader Class Reference

Inheritance diagram for TestReader:

List of all members.

Public Member Functions
	TestReader ()
virtual std::string	identify (const std::string &filename, const std::string &head) const
virtual void	read (const std::string &filename, const std::string &head, MSData &result, int runIndex=0, const Config &config=Config()) const
virtual void	read (const std::string &filename, const std::string &head, std::vector< MSDataPtr > &results, const Config &config=Config()) const
const char *	getType () const
	TestReader ()
virtual std::string	identify (const std::string &uri, shared_ptr< istream > uriStreamPtr) const
virtual void	read (const std::string &uri, shared_ptr< istream > uriStreamPtr, ProteomeData &pd) const
const char *	getType () const
Public Member Functions inherited from pwiz::proteome::Reader
bool	accept (const std::string &uri, boost::shared_ptr< std::istream > uriStreamPtr) const
	return true iff Reader recognizes the file as one it should handle
virtual std::string	identify (const std::string &uri, boost::shared_ptr< std::istream > uriStreamPtr) const =0
	return file type iff Reader recognizes the file, else empty;
virtual void	read (const std::string &uri, ProteomeData &result) const
	fill in the ProteomeData structure from a new URI stream
virtual void	read (const std::string &uri, boost::shared_ptr< std::istream > uriStreamPtr, ProteomeData &result) const =0
	fill in the ProteomeData structure from a shared URI stream
virtual	~Reader ()

Public Attributes
int	count

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Detailed Description

Definition at line 220 of file MSDataFileTest.cpp.

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Constructor & Destructor Documentation

TestReader::TestReader ( )

inline

Definition at line 224 of file MSDataFileTest.cpp.

: count(0) {}

TestReader::TestReader ( )

inline

Definition at line 142 of file ProteomeDataFileTest.cpp.

: count(0) {}

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Member Function Documentation

virtual std::string TestReader::identify ( const std::string &  filename, const std::string &  head  ) const

inlinevirtual

Definition at line 226 of file MSDataFileTest.cpp.

References rawHeader_.

    {
        if (filename.size()<=4 || filename.substr(filename.size()-4)!=".RAW")
            return std::string("");

        for (size_t i=0; i<sizeof(rawHeader_); i++)
            if (head[i] != rawHeader_[i]) 
            return std::string("");

        count++;
        return filename;
    }

virtual void TestReader::read ( const std::string &  filename, const std::string &  head, MSData &  result, int  runIndex = 0, const Config &  config = Config()  ) const

inlinevirtual

Definition at line 239 of file MSDataFileTest.cpp.

    {
        count++;
    }

virtual void TestReader::read ( const std::string &  filename, const std::string &  head, std::vector< MSDataPtr > &  results, const Config &  config = Config()  ) const

inlinevirtual

Definition at line 245 of file MSDataFileTest.cpp.

References pwiz::identdata::IO::read().

    {
        results.push_back(MSDataPtr(new MSData));
        read(filename, head, *results.back(), 0, config);
    }

const char* TestReader::getType ( ) const

inlinevirtual

Implements pwiz::proteome::Reader.

Definition at line 254 of file MSDataFileTest.cpp.

{return "testReader";} // satisfy inheritance

virtual std::string TestReader::identify ( const std::string &  uri, shared_ptr< istream >  uriStreamPtr  ) const

inlinevirtual

Definition at line 144 of file ProteomeDataFileTest.cpp.

    {
        ++count;

        if (!bal::iends_with(uri, ".fasta"))
            return "";

        string buf;
        getline(*uriStreamPtr, buf);
        if (buf[0] != '>')
            return "";

        return getType();
    }

virtual void TestReader::read ( const std::string &  uri, shared_ptr< istream >  uriStreamPtr, ProteomeData &  pd  ) const

inlinevirtual

Definition at line 159 of file ProteomeDataFileTest.cpp.

    {
        ++count;
    }

const char* TestReader::getType ( ) const

inlinevirtual

Implements pwiz::proteome::Reader.

Definition at line 166 of file ProteomeDataFileTest.cpp.

{return "testReader";} // satisfy inheritance

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Member Data Documentation

int TestReader::count

mutable

Definition at line 256 of file MSDataFileTest.cpp.

Referenced by testReader().

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The documentation for this class was generated from the following files:

• /Users/parag/_Research/pwiz/svn/trunk/pwiz/pwiz/data/msdata/MSDataFileTest.cpp
• /Users/parag/_Research/pwiz/svn/trunk/pwiz/pwiz/data/proteome/ProteomeDataFileTest.cpp