addBasisOption(const String &key, const String &value) | BALL::GAMESSLogFile | |
addCoefficient(float coefficient) | BALL::GAMESSLogFile | |
basis_options_ | BALL::GAMESSLogFile | protected |
basis_size | BALL::GAMESSLogFile | |
clear() | BALL::LineBasedFile | virtual |
clearBonds() | BALL::GAMESSLogFile | |
close() | BALL::GenericMolFile | virtual |
col_buffer_ | BALL::LineBasedFile | protected |
compress_output_ | BALL::GenericMolFile | protected |
copy(String source_name, String destination_name, Size buffer_size=4096) | BALL::File | static |
copyTo(const String &destination_name, Size buffer_size=4096) | BALL::File | |
created_temp_filenames_ | BALL::File | protectedstatic |
createTemporaryFilename(String &temporary, const String &suffix=".TMP") | BALL::File | static |
current_atom | BALL::GAMESSLogFile | |
current_coefficient_line | BALL::GAMESSLogFile | |
current_set | BALL::GAMESSLogFile | |
defineInputAsTemporary(bool b=true) | BALL::GenericMolFile | |
disableTransformation(Transformation transformation) | BALL::File | static |
enableOutputCompression(String zipped_filename) | BALL::GenericMolFile | |
enableTransformation(Transformation transformation) | BALL::File | static |
enableTrimWhitespaces(bool state) | BALL::LineBasedFile | |
factor_ | BALL::GAMESSLogFile | protected |
File() | BALL::File | |
File(const String &name, OpenMode open_mode=std::ios::in) | BALL::File | |
GAMESSLogFile() | BALL::GAMESSLogFile | |
GAMESSLogFile(const GAMESSLogFile &file) | BALL::GAMESSLogFile | |
GAMESSLogFile(const String &filename, File::OpenMode open_mode=std::ios::in) | BALL::GAMESSLogFile | |
GenericMolFile() | BALL::GenericMolFile | |
GenericMolFile(const String &filename, File::OpenMode open_mode=std::ios::in) | BALL::GenericMolFile | |
getBasisOption(const String &key) | BALL::GAMESSLogFile | |
getBasisSet() | BALL::GAMESSLogFile | |
getBasisSet() const | BALL::GAMESSLogFile | |
getField(Index pos=0, const String "es="", const String &delimiters=String::CHARACTER_CLASS__WHITESPACE) const | BALL::LineBasedFile | |
getFileStream() | BALL::File | |
getLine() const | BALL::LineBasedFile | |
getLine() | BALL::LineBasedFile | |
getLineNumber() const | BALL::LineBasedFile | |
getName() const | BALL::File | |
getOpenMode() const | BALL::File | |
getOriginalName() const | BALL::File | |
getSize() | BALL::File | |
getSize(String name) | BALL::File | static |
getTransformationManager() | BALL::File | |
getTransformationManager() const | BALL::File | |
getType(String name, bool trace_link) | BALL::File | static |
getType(bool trace_link) const | BALL::File | |
gmf_is_closed_ | BALL::GenericMolFile | protected |
gotoLine(Position line_number) | BALL::LineBasedFile | |
has(const String &text) const | BALL::LineBasedFile | |
initializeBasisSet() | BALL::GAMESSLogFile | |
initRead_() | BALL::GAMESSLogFile | protectedvirtual |
initWrite_() | BALL::GenericMolFile | protectedvirtual |
input_is_temporary_ | BALL::GenericMolFile | protected |
insertAtom(const String &element, float charge, float x, float y, float z) | BALL::GAMESSLogFile | |
insertBond(Index a1, Index a2) | BALL::GAMESSLogFile | |
is_open_ | BALL::File | protected |
is_temporary_ | BALL::File | protected |
isAccessible(String name) | BALL::File | static |
isAccessible() const | BALL::File | |
isCanonized() const | BALL::File | |
isClosed() const | BALL::File | |
isCompressedFile() | BALL::GenericMolFile | |
isExecutable(String name) | BALL::File | static |
isExecutable() const | BALL::File | |
isOpen() const | BALL::File | |
isReadable(String name) | BALL::File | static |
isReadable() const | BALL::File | |
isTransformationEnabled(Transformation transformation) | BALL::File | static |
isValid() const | BALL::File | |
isWritable(String name) | BALL::File | static |
isWritable() const | BALL::File | |
line_ | BALL::LineBasedFile | protected |
line_number_ | BALL::LineBasedFile | protected |
LineBasedFile() | BALL::LineBasedFile | |
LineBasedFile(const String &filename, File::OpenMode open_mode=std::ios::in, bool trim_whitespaces=false) | BALL::LineBasedFile | |
MODE_APP | BALL::File | static |
MODE_ATE | BALL::File | static |
MODE_BINARY | BALL::File | static |
MODE_IN | BALL::File | static |
MODE_OUT | BALL::File | static |
MODE_TRUNC | BALL::File | static |
molecule_ | BALL::GAMESSLogFile | protected |
molecule_already_defined | BALL::GAMESSLogFile | |
move(const String &source_name, const String &destination_name) | BALL::File | static |
moveTo(const String &destination_name) | BALL::File | |
name_ | BALL::File | protected |
newMolecule() | BALL::GAMESSLogFile | |
open(const String &name, File::OpenMode open_mode=std::ios::in) | BALL::File | |
open_mode_ | BALL::File | protected |
OpenMode typedef | BALL::File | |
operator!=(const LineBasedFile &f) | BALL::LineBasedFile | |
BALL::File::operator!=(const File &file) const | BALL::File | |
operator<<(const System &system) | BALL::GenericMolFile | virtual |
operator<<(const Molecule &molecule) | BALL::GenericMolFile | virtual |
operator=(const GAMESSLogFile &rhs) | BALL::GAMESSLogFile | |
BALL::GenericMolFile::operator=(const GenericMolFile &rhs) | BALL::GenericMolFile | |
BALL::LineBasedFile::operator=(const LineBasedFile &file) | BALL::LineBasedFile | |
operator==(const LineBasedFile &f) | BALL::LineBasedFile | |
BALL::File::operator==(const File &file) const | BALL::File | |
operator>>(System &system) | BALL::GenericMolFile | virtual |
operator>>(Molecule &molecule) | BALL::GenericMolFile | virtual |
original_name_ | BALL::File | protected |
parseColumnFormat(const char *format, Position index, Size length, void *arg) | BALL::LineBasedFile | |
qmbs_ | BALL::GAMESSLogFile | protected |
read() | BALL::GAMESSLogFile | virtual |
read(System &system) | BALL::GAMESSLogFile | virtual |
readLine() | BALL::LineBasedFile | |
registerTransformation(const String &pattern, const String &exec) | BALL::File | static |
remove(String name) | BALL::File | static |
remove() | BALL::File | |
rename(String old_path, String new_path) | BALL::File | static |
renameTo(const String &new_path) | BALL::File | |
reopen() | BALL::File | |
reopen(File::OpenMode open_mode) | BALL::File | |
rewind() | BALL::LineBasedFile | |
search(const String &text, bool return_to_start=false) | BALL::LineBasedFile | |
search(const String &text, const String &stop, bool return_to_start=false) | BALL::LineBasedFile | |
setCurrentCharge(float charge) | BALL::GAMESSLogFile | |
setMoleculeName(char *name) | BALL::GAMESSLogFile | |
setName(const String &name) | BALL::File | |
setUnitConversionFactor(float factor) | BALL::GAMESSLogFile | |
skipLines(Size number=1) | BALL::LineBasedFile | |
startsWith(const String &text) const | BALL::LineBasedFile | |
state | BALL::GAMESSLogFile | static |
switchString(const std::vector< String > &data) const | BALL::LineBasedFile | |
system | BALL::GAMESSLogFile | |
test(const char *file, int line, bool condition, const String &msg) const | BALL::LineBasedFile | |
Transformation enum name | BALL::File | |
TRANSFORMATION__EXEC enum value | BALL::File | |
TRANSFORMATION__FILTER enum value | BALL::File | |
TRANSFORMATION__URL enum value | BALL::File | |
TRANSFORMATION_EXEC_PREFIX | BALL::File | static |
TRANSFORMATION_FILE_PREFIX | BALL::File | static |
TRANSFORMATION_FTP_PREFIX | BALL::File | static |
TRANSFORMATION_HTTP_PREFIX | BALL::File | static |
transformation_manager_ | BALL::File | protectedstatic |
transformation_methods_ | BALL::File | protectedstatic |
trim_whitespaces_ | BALL::LineBasedFile | protected |
trimWhiteSpacesEnabled() const | BALL::LineBasedFile | |
truncate(String path, Size size=0) | BALL::File | static |
truncate(Size size=0) | BALL::File | |
Type enum name | BALL::File | |
TYPE__BLOCK_SPECIAL_FILE enum value | BALL::File | |
TYPE__CHAR_SPECIAL_FILE enum value | BALL::File | |
TYPE__DIRECTORY enum value | BALL::File | |
TYPE__FIFO_SPECIAL_FILE enum value | BALL::File | |
TYPE__REGULAR_FILE enum value | BALL::File | |
TYPE__SOCKET enum value | BALL::File | |
TYPE__SYMBOLIC_LINK enum value | BALL::File | |
TYPE__UNKNOWN enum value | BALL::File | |
unregisterTransformation(const String &pattern) | BALL::File | static |
write(const Molecule &molecule) | BALL::GAMESSLogFile | virtual |
write(const System &molecule) | BALL::GAMESSLogFile | virtual |
zipped_filename_ | BALL::GenericMolFile | protected |
~File() | BALL::File | virtual |
~GAMESSLogFile() | BALL::GAMESSLogFile | virtual |
~GenericMolFile() | BALL::GenericMolFile | virtual |