#include <BALL/FORMAT/amiraMeshFile.h>

Inheritance diagram for BALL::AmiraMeshFile:

Public Member Functions
Constructors and Destructor
	AmiraMeshFile ()
	Default constructor. More...

	AmiraMeshFile (const String &name, File::OpenMode open_mode=std::ios::in)

virtual	~AmiraMeshFile ()
	Destructor. More...

Assignment
virtual void	clear ()
	Clear method. More...

Predicates
bool	operator== (const AmiraMeshFile &file) const
	Equality operator. More...

Public Member Functions inherited from BALL::File
	File ()

	File (const String &name, OpenMode open_mode=std::ios::in)

virtual	~File ()

bool	isValid () const

bool	open (const String &name, File::OpenMode open_mode=std::ios::in)

bool	reopen ()

bool	reopen (File::OpenMode open_mode)

void	close ()

const String &	getName () const

void	setName (const String &name)

const String &	getOriginalName () const

Size	getSize ()

File::OpenMode	getOpenMode () const

Type	getType (bool trace_link) const

bool	copyTo (const String &destination_name, Size buffer_size=4096)

bool	moveTo (const String &destination_name)

bool	remove ()

bool	renameTo (const String &new_path)

bool	truncate (Size size=0)

std::fstream &	getFileStream ()

TransformationManager &	getTransformationManager ()

const TransformationManager &	getTransformationManager () const

bool	operator== (const File &file) const

bool	operator!= (const File &file) const

bool	isOpen () const

bool	isClosed () const

bool	isAccessible () const

bool	isCanonized () const

bool	isReadable () const

bool	isWritable () const

bool	isExecutable () const

Public methods for file handling
bool	binary_
	flag indicating whether a ascii or binary data section More...

Vector3	extent_
	the extent of the map More...

Vector3	min_
	Vector representing the first point of the maps bounding box. More...

Vector3	max_
	Vector representing the second point of the maps bounding box. More...

long	idx_start_data_

Position	num_components_

virtual bool	open (const String &name, File::OpenMode open_mode=std::ios::in)

virtual bool	readHeader ()

virtual bool	read (RegularData3D &map)

virtual bool	writeHeader ()

virtual bool	write (RegularData3D &map)

const AmiraMeshFile &	operator= (const AmiraMeshFile &file)

const char *	findAndJump_ (const char buffer, const char search_String)

Additional Inherited Members
Public Types inherited from BALL::File
typedef std::ios::openmode	OpenMode

enum	Transformation { TRANSFORMATION__EXEC = 1, TRANSFORMATION__FILTER = 2, TRANSFORMATION__URL = 3 }

enum	Type { TYPE__UNKNOWN = 0, TYPE__DIRECTORY = 1, TYPE__CHAR_SPECIAL_FILE = 2, TYPE__BLOCK_SPECIAL_FILE = 3, TYPE__REGULAR_FILE = 4, TYPE__SYMBOLIC_LINK = 5, TYPE__SOCKET = 6, TYPE__FIFO_SPECIAL_FILE = 7 }

Static Public Member Functions inherited from BALL::File
static Size	getSize (String name)

static Type	getType (String name, bool trace_link)

static bool	copy (String source_name, String destination_name, Size buffer_size=4096)

static bool	move (const String &source_name, const String &destination_name)

static bool	remove (String name)

static bool	rename (String old_path, String new_path)

static bool	truncate (String path, Size size=0)

static bool	createTemporaryFilename (String &temporary, const String &suffix=".TMP")

static void	enableTransformation (Transformation transformation)

static void	disableTransformation (Transformation transformation)

static bool	isTransformationEnabled (Transformation transformation)

static void	registerTransformation (const String &pattern, const String &exec)

static void	unregisterTransformation (const String &pattern)

static bool	isAccessible (String name)

static bool	isReadable (String name)

static bool	isWritable (String name)

static bool	isExecutable (String name)

Static Public Attributes inherited from BALL::File
static const OpenMode	MODE_IN
	Open for input (default) More...

static const OpenMode	MODE_OUT
	Open for output. More...

static const OpenMode	MODE_APP
	Append. Seek to end before each write operation. More...

static const OpenMode	MODE_BINARY
	Binary mode. More...

static const OpenMode	MODE_ATE
	Seek to end directly after opening. More...

static const OpenMode	MODE_TRUNC
	Truncate an existing file. More...

static const String	TRANSFORMATION_EXEC_PREFIX
	Prefix for filenames that are created through the execution of commands "exec:". More...

static const String	TRANSFORMATION_FILE_PREFIX
	Prefix for files (to mimick URL-like behavior) "file:". More...

static const String	TRANSFORMATION_FTP_PREFIX
	Prefix for FTP-transfers "ftp://". More...

static const String	TRANSFORMATION_HTTP_PREFIX
	Prefix for HTTP-transfer "http://". More...

Protected Attributes inherited from BALL::File
String	name_

String	original_name_

OpenMode	open_mode_

bool	is_open_

bool	is_temporary_

Static Protected Attributes inherited from BALL::File
static HashSet< String >	created_temp_filenames_

static TransformationManager	transformation_manager_

static Size	transformation_methods_

Detailed Description

AmiraMesh grid file format. This class enables BALL to read the native format of Amira. The academic version of Amira is developed by the Visualization and Data Analysis Group at Zuse Institute Berlin. Commercial versions are available from Visage Imaging, Berlin and VSG - Visualization Sciences Group, France.

For detailed information on the file format see: http://amira.zib.de/mol/usersguide/HxFileFormat_AmiraMesh.html

At the moment, we only support uniform grids in little endian binary and ASCII data sections. The following parser code is inspired by the code of Tino Weinkauf (cf. http://www.mpi-inf.mpg.de/~weinkauf/notes/amiramesh.html)

Definition at line 35 of file amiraMeshFile.h.

Constructor & Destructor Documentation

BALL::AmiraMeshFile::AmiraMeshFile ( )

Default constructor.

BALL::AmiraMeshFile::AmiraMeshFile	(	const String &	name,
		File::OpenMode	open_mode = `std::ios::in`
	)

Detailed constructor

Exceptions

Exception::FileNotFound if the file could not be opened

virtual BALL::AmiraMeshFile::~AmiraMeshFile ( )

virtual

Destructor.

Member Function Documentation

virtual void BALL::AmiraMeshFile::clear ( )

virtual

Clear method.

Reimplemented from BALL::File.

const char* BALL::AmiraMeshFile::findAndJump_	(	const char *	buffer,
		const char *	search_String
	)

protected

Find string in given buffer and return a pointer to the contents directly behind the SearchString

virtual bool BALL::AmiraMeshFile::open	(	const String &	name,
		File::OpenMode	open_mode = `std::ios::in`
	)

virtual

open a AmiraMeshFile

Exceptions

Exception::FileNotFound if the file could not be opened

const AmiraMeshFile& BALL::AmiraMeshFile::operator= ( const AmiraMeshFile & file )

private

bool BALL::AmiraMeshFile::operator== ( const AmiraMeshFile & file ) const

Equality operator.

virtual bool BALL::AmiraMeshFile::read ( RegularData3D & map )

virtual

Read the file into a RegularData3D field.

virtual bool BALL::AmiraMeshFile::readHeader ( )

virtual

Read the header of an existing file. Return true if the header could be read successfully, false ow.

virtual bool BALL::AmiraMeshFile::write ( RegularData3D & map )

virtual

Write a RegularData3D to a AmiraMesh File Return true if the map could be written successfully, false ow.

virtual bool BALL::AmiraMeshFile::writeHeader ( )

virtual

Write a header Return true if the header could be written successfully, false ow.

Member Data Documentation

bool BALL::AmiraMeshFile::binary_

protected

flag indicating whether a ascii or binary data section

Definition at line 110 of file amiraMeshFile.h.

Vector3 BALL::AmiraMeshFile::extent_

protected

the extent of the map

Definition at line 113 of file amiraMeshFile.h.

long BALL::AmiraMeshFile::idx_start_data_

protected

Definition at line 122 of file amiraMeshFile.h.

Vector3 BALL::AmiraMeshFile::max_

protected

Vector representing the second point of the maps bounding box.

Definition at line 119 of file amiraMeshFile.h.

Vector3 BALL::AmiraMeshFile::min_

protected

Vector representing the first point of the maps bounding box.

Definition at line 116 of file amiraMeshFile.h.

Position BALL::AmiraMeshFile::num_components_

protected

Definition at line 125 of file amiraMeshFile.h.

Public Member Functions

Public methods for file handling

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation