phylip.cxx File Reference

#include "input_format.h"
#include "reader.h"
#include "ali.h"
#include <cerrno>

Include dependency graph for phylip.cxx:

Go to the source code of this file.

Functions
static void	phylip_print_line (const Seq &seq, int index, Writer &write)
static void	inject_STDIN (FileWriter &write)
void	to_phylip (const FormattedFile &in, const char *outf, bool for_fastdnaml)

Function Documentation

static void phylip_print_line ( const Seq &  seq, int  index, Writer &  write  )

static

Definition at line 7 of file phylip.cxx.

References ca_assert, Seq::get_id(), Seq::get_len(), Seq::get_seq(), length, Writer::out(), SEQLINE, and str0len().

Referenced by to_phylip().

static void inject_STDIN ( FileWriter &  write )

static

Definition at line 56 of file phylip.cxx.

References FileWriter::out().

Referenced by to_phylip().

void to_phylip	(	const FormattedFile &	in,
		const char *	outf,
		bool	for_fastdnaml
	)

Definition at line 64 of file phylip.cxx.

References ca_assert, FileWriter::expect_written(), Alignment::get(), Alignment::get_count(), FileWriter::get_FILE(), Alignment::get_max_len(), inject_STDIN(), is_input_format(), FileWriter::out(), FileWriter::outf(), PHYLIP, phylip_print_line(), read_alignment(), FileWriter::seq_done(), SEQLINE, throw_conversion_not_supported(), throw_error(), throw_errorf(), and FormattedFile::type().

Referenced by convert().