ajfile

Enum AjEOutfileType

Enumerated value(s)

Name
ajEOutfileTypeUnknown	Unknown - none of these
ajEOutfileTypeAssembly	Assembly
ajEOutfileTypeCodon	Codon usage
ajEOutfileTypeCPDB	Clean PDB
ajEOutfileTypeDiscrete	Discrete data
ajEOutfileTypeDistance	Distance matrix data
ajEOutfileTypeFrequency	Frequency data
ajEOutfileTypeMatrix	Integer matrix data
ajEOutfileTypeMatrixF	Floating point matrix data
ajEOutfileTypeOBO	OBO ontology data
ajEOutfileTypeProperties	Phylogenetic properties
ajEOutfileTypeRefseq	Reference sequence data
ajEOutfileTypeResource	Data resource catalogue data
ajEOutfileTypeSCOP	SCOP data
ajEOutfileTypeTaxon	NCBI taxonomy data
ajEOutfileTypeText	Text data
ajEOutfileTypeTree	Phylogenetic tree data
ajEOutfileTypeURL	URL data
ajEOutfileTypeVariation	Variation data
ajEOutfileTypeXml	XML data

Data type AjPFile

On output, conversion code "%F" writes the filename.

Alias name(s)

Name
AjSFile
AjOFile

Attributes

Name	Type	Description
fp	FILE*	C file pointer
Name	AjPStr	File name as used when opening
Printname	AjPStr	File name in a clean form for reporting
List	AjPList	List of file names (first is open)
End	AjBool	True if EOF has been reached
App	AjBool	True if file was opened for append.
Buff	AjPStr	Buffer for latest line read
Workbuffer	char*	Block as a buffer for fgets etc
Readblock	char*	Block as a buffer for fread
Filepos	ajlong	File offset for start of latest read
Blocksize	ajuint	Read block maximum size
Blockpos	ajuint	Read block position
Blocklen	ajuint	Read block length used
Buffsize	ajuint	Buffer size (zero for default size)
Handle	ajint	AJAX file number 0 if unused
Pid	pid_t	Process PID if any (non-WIN32 only)
Process	HANDLE	Process handle (WIN32 only)
Thread	HANDLE	Thread handle (WIN32 only)

Data type AjPFilebufflist

This is a substructure of the AjPFilebuff object.

Alias name(s)

Name
AjSFilebufflist
AjSOilebufflist

Attributes

Name	Type	Description
Line	AjPStr	String : this line
Next	struct AjSFilebufflist*	Next line in the list, NULL for last
Fpos	ajlong	File offset for start of this line

Data type AjPFilebuff

Alias name(s)

Name
AjSFilebuff
AjOFilebuff

Attributes

Name	Type	Description
File	AjPFile	The input file - data to be buffered
Lines	AjPFilebufflist	All lines ... where the data really is
Freelines	AjPFilebufflist	Free list of lines for reuse
Curr	AjPFilebufflist	Current line in Lines list
Prev	AjPFilebufflist	Previous line (points to Curr for delete)
Last	AjPFilebufflist	Last line for quick appending
Freelast	AjPFilebufflist	Last free line for quick append
Nobuff	AjBool	if true, do not buffer the file
Pos	ajint	Position in list
Size	ajint	Size of list
FreeSize	ajint	Size of free list
Fpos	ajlong	File position in File

Data type AjPDir

Alias name(s)

Name
AjSDir
AjODir

Attributes

Name	Type	Description
Name	AjPStr	Path
Printname	AjPStr	Directory path in a clean form for reporting
Prefix	AjPStr	Default filename prefix
Extension	AjPStr	Default file extension

Data type AjPDirout

Alias name(s)

Name
AjSDirout
AjODirout

Attributes

Name	Type	Description
Name	AjPStr	Path
Printname	AjPStr	Directory path in a clean form for reporting
Extension	AjPStr	Default file extension
Created	AjBool	New directory created
Padding	char[4]	Padding to alignment boundary

Data type AjPOutfile

On output, conversion code "%F" writes the filename.

Alias name(s)

Name
AjSOutfile
AjOOutfile

Attributes

Name	Type	Description
File	AjPFile	File object
Type	AjPStr	Named data file type
Formatstr	AjPStr	Format specific for this data type
Cleanup	void function	Function to write remaining lines on closing
OutData	void*	Format data for reuse, e.g. multiple entry output
Itype	ajuint	Index number for Type
Format	ajint	Index for Formatstr for this data type
Records	ajuint	Number of records written
Padding	char[4]	Padding to alignment boundary