ajrefseqdata

Data type AjPRefseq

Holds the refseq itself, plus associated information.

Alias name(s)

Name
AjSRefseq
AjORefseq

Attributes

Name	Type	Description
Id	AjPStr	Id of term
Db	AjPStr	Database name from input
Setdb	AjPStr	Database name from command line
Full	AjPStr	Full name
Qry	AjPStr	Query for re-reading
Formatstr	AjPStr	Input format name
Filename	AjPStr	Original filename
TextPtr	AjPStr	Full text
Desc	AjPStr	Description
Seq	AjPStr	Sequence
Seqlist	AjPList	Sequence list
Fpos	ajlong	File position
Format	AjEnum	Input format enum
Count	ajuint	Number of lines read

Data type AjPRefseqin

Holds the input specification and information needed to read the refseq and possible further entries

Alias name(s)

Name
AjSRefseqin
AjORefseqin

Attributes

Name	Type	Description
Input	AjPTextin	General text input object
RefseqData	void*	Format data for reuse, e.g. multiple term input (unused in current code)

Data type AjPRefseqall

Inherits an AjPRefseq but allows more refseqs to be read from the same input by also inheriting the AjPRefseqin input object.

Alias name(s)

Name
AjSRefseqall
AjORefseqall

Attributes

Name	Type	Description
Refseq	AjPRefseq	Current refseq
Refseqin	AjPRefseqin	Refseq input for reading next
Totterms	ajulong	Count of terms so far
Count	ajuint	Count of terms so far
Multi	AjBool	True if multiple values are expected
Returned	AjBool	if true: Refseq object has been returned to a new owner and is not to be deleted by the destructor
Padding	char[4]	Padding to alignment boundary

Data type AjPRefseqAccess

Holds information needed to read a refseq entry from a database. Access methods are defined for each known database type.

Refseq entries are read from the database using the defined database access function, which is usually a static function within ajrefseqdb.c

This should be a static data object but is needed for the definition of AjPRefseqin.

Alias name(s)

Name
AjSRefseqAccess
AjORefseqAccess

Attributes

Name	Type	Description
Name	const char*	Access method name used in emboss.default
Access	AjBool function	Access function
AccessFree	AjBool function	Access cleanup function
Qlink	const char*	Supported query link operators
Desc	const char*	Description
Alias	AjBool	Alias for another name
Entry	AjBool	Supports retrieval of single entries
Query	AjBool	Supports retrieval of selected entries
All	AjBool	Supports retrieval of all entries
Chunked	AjBool	Supports retrieval of entries in chunks
Padding	AjBool	Padding to alignment boundary