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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/clustal__omega__tool__job_8cpp_source.html below:

NCBI C++ ToolKit: src/gui/packages/pkg_alignment/clustal_omega_tool_job.cpp Source File

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34 #include <wx/filename.h> 35 #include <wx/sstream.h> 36 #include <wx/txtstrm.h> 54  if

(!wxFileName::FileExists(clustalOmegaExe)) {

65

wxStringOutputStream strstr;

66

wxTextOutputStream os(strstr);

67 #if defined(__WINDOWS__) 68

os <<

wxT

(

"\""

) << clustalOmegaExe <<

wxT

(

"\""

)

70

os <<

wxT

(

"'"

) << clustalOmegaExe <<

wxT

(

"'"

)

74

<<

wxT

(

" --force"

);

81

moreParams.Trim(

true

);

82

moreParams.Trim(

false

);

83  if

(!moreParams.empty())

84

os <<

wxT

(

" "

) << moreParams;

86

wxString cmdline = strstr.GetString();

88 #if defined(__WINDOWS__) 89  return

strstr.GetString();

91  return "sh -c \""

+ strstr.GetString() +

"\""

;

static SQLCHAR output[256]

#define NCBI_THROW(exception_class, err_code, message)

Generic macro to throw an exception, given the exception class, error code and message string.

CClustalOmegaToolJob(const CClustalOmegaToolParams &params)

CClustalOmegaToolJob.

wxString GetCommandLine() const

CClustalOmegaToolParams m_Params

wxString GetClustalOmegaExecutable() const

virtual wxString x_GetCommandLine(const wxString &input, const wxString &output, bool is_nucleotide)

Returns the command line, that will be used to execute the third-party tool.

bool GetGenerateTree() const

string m_Descr

mutex to sync our internals

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

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