Syntax definition

The complete syntax definition of the neutral file in BNF notation is given by the productions defined below and those which have been documented... 

Data formats based on the STAR file with their own dictionaries can further restrict the syntax of files to conform to their definition. 

There are also a few additional, but less important, syntax rules proposed in Ref [148], Users interested in a detailed specification of the STAR file format should make themselves familiar with the definitive STAR file written specification [149],... 

The syntax for implementing this in an actual expert system is, of course, quite diverse and it is beyond the scope of this book to describe this in more detail. As an example the above-mentioned mle is translated in a realistic syntax. This starts by the definition of the attributes and their possible values. In this examples two attributes must be defined ... 

II. PROGRAM SCHEMES - BASIC DEFINITIONS AND CONCEPTS A. SYNTAX - IHE MODEL... 

Following the above observations, the process model can be formulated by TA. For formal definitions of the syntax and semantics of TA, see [15]. TA are used to model the individual resources by resource automata and to describe timing constraints by place automata. The former are used to start and to finish tasks which are uniquely assigned to resources, the latter establish timing constraints of places. 

It is a central tenet of our approach that every picture should be translatable into text-based statements, not because you d ever want to but because that gives it a clear and unambiguous meaning. For the same reason, the text-based notation we use can be translated into a small core syntax. Notice that this is more than a claim to have a clear syntax It is an unambiguous semantics. So the names, definitions, and statements of a package1 really carry all the information we will discuss in the rest of this section. 

Dictionary With every declaration there should be a dictionary entry. Its purpose is to convey informally what the name represents and its relationship to its real world. Whether or not it is presented as a single table, the dictionary is notionally the holder of all the names and their definitions in a package even if the definitions are actually spread around narrative text or within other pieces of syntax. 

A final difference between the SWISS-PROT and TrEMBL entries, affects the DT line (DaTe). The syntax and definition of the DT lines that indicate when an entry was created and updated are identical to that defined in SWISS-PROT, but the DT lines in TrEMBL refer to the TrEMBL release. The difference is shown in the following example. DT lines in a SWISS-PROT entry ... 

Most specialized disciplines have their own specialized jargons, each a lexicon and syntax developed partly to make communication more efficient and partly by historical accident. For convenience, this section lists a number of words and phrases used elsewhere in this book and in the pertinent literature that require special attention. Some such terms will be obscure outside the circle of communicants, some have special meanings or connotations beyond their normal dictionary definitions, and some need particular attention because they are not used consistently in the literature. 

An excellent source for definitions of these terms may be found at http // www.google.com/. In the search statement, use the syntax definerxyz where xyz is the term for which a definition is sought. 

The conversion of chemical names into chemical structures can be represented as two intersecting schemes utilizing a lookup dictionary and using syntax analysis. A combination of these two approaches is definitely needed for the analysis of chemical names in the real world. 

The syntax for the definition of the subclass was given in Section II.B and is reproduced by the following seven (7) lines in Backus-Naur form (BNF) ... 

As defined in Subsect. 2.1.2, a document is an aggregation of data and acts as a carrier of product data in a certain work context. One possibility to represent models of document contents is the use of the extensible Markup Language (XML) [1060] and its Document Type Definitions (DTDs), as suggested by Bayer and Marquardt [19]. Within a DTD, the structure of a specific document type can be described. Figure 2.9 shows the (incomplete) DTD of a specification sheet for vessels. Here, the different data items like temperature or construction material are indicated to specify the piece of equipment. However, the expressiveness of such document type definitions is rather restricted. A DTD specifies only the syntax of the document content but not its semantics. One possibility to enrich the DTD with meaning is to relate the single DTD elements to the classes and attributes of a product data model. This is exemplarily shown Fig. 2.9, where relations between some DTD elements and the corresponding classes of the product data model CLiP (cf. Subsect. 2.2.3) are indicated. 

The abstract syntax of collaboration diagrams is defined by the graph schema shown in Fig. 5.67, which will be explained later. A formal definition of the abstract syntax, again, enables the modeling environment to guarantee (syntactical) correctness and completeness with respect to context-free as well as context-sensitive conditions, such as tjrpe conformity of actual and formal parameters to facilitate the generation of executable code. 

SRS attempts to meet all the challenges listed in the introduction to this chapter. Molecular biology resources - databases and applications - can be quickly and easily incorporated into the system. Using the meta definitions of the format and syntax of the resources, SRS creates indices of the data (both databases and the output of applications) which can then be quickly and easily queried. Once a query is performed against one or more databases, either the whole database entry or just the information which the user requires can be extracted from the databases and displayed. Links (both explicit and implicit) between those data and other databases can be made and hence navigation between resources is possible. 

To achieve this SRS utilizes the special purpose programming language, ICARUS (Interpreter of Commands and Recursive Syntax), which is used both for the meta definition of biological resources and the syntactic description of the data in the resources. The SRS core includes programs which use ICARUS meta definitions and syntactic descriptions to index and retrieve information from resources. In the case of applications, the meta definition includes information on how to run the programs as well as the meta description of the syntax and structure of the output. 

In SRS, meta definition is used to describe objects which the SRS core uses. In the case of a database, a library object must be defined. This object contains the name of the library, what sort of library it is (i.e. what group of databanks it belongs to), the name and whereabouts of the flat files containing the data. It also contains a link to a file containing a list of rules which describe the internal syntax of the databank. These syntax rules will be described below. 

To create the indices, SRS uses the rules given in the syntax description to create tokens. In this case, a token is defined as a piece of text from the database entry. These tokens are stored in token tables which are linked to a particular field in the database by a meta definition in the library meta definition object. 

For each library a syntax description of the data must be supplied. This syntax description must describe the data in the database and takes the form of a set of rules, also called a grammar. This list of rules is written in the SRS programming language ICARUS. The rules in this case provide the syntax part of the ICARUS language (the other part being Meta Definition) and are called productions. Productions are used to extract pieces of text from a database entry, tokens which are written to token tables. It is the data which is in these token tables that is indexed and used when querying the database, or extracting parts of the database for display. 

The Interoperable Informatics Infrastructure Consortium (I3C) has sponsored the definition of a specification for an identifier that can be used to reference and locate biological objects. The Life Sciences Identifiers Definition10 defines the syntax of a stable identifier and a mechanism to locate an authoritative server and resolve the identifier to a biological object. There are a number of reference implementations of this specification, and it has generated some interest in the bioinformatics community. It has yet to achieve widespread adoption but deserves a look if a research system requires the ability to specify stable identifiers for biological objects. 

In the first section of this chapter spin systems and pulse sequences are discussed. Starting with the definition of a spin system and a description of the various spin parameters used by NMR-SIM. Using suitable examples the correct definition of spin system parameters, how to reduce the number of spin system parameters and the application of variable spin system parameters is illustrated. Following on, pulse sequences are discussed in some detail and the difference between a pulse sequence and a pulse program is emphasized. The pulse program language of NMR-SIM should be familiar to users of Bruker NMR spectrometers as it uses the same syntax. However, because this is not covered in the NMR-SIM manual, pulse sequence elements such as pulses, phases and delays are explained in detail and illustrated using a variety of examples. 

Examples of graphics applications interface standards are the Graphics Kernel System (GKS) (i6) and the Programmer s Hierarchical Interactive Graphics System (PHIGS) (7) Specific interface definitions are part of both GKS and PHIGS. For the device driver interface, examples are the North American Presentation Level Protocol Syntax (NAPLPS) ( ) and the Computer Graphics Interface (CGI) (9). 

The control program is checked for syntax, words, program block composition, tool path definition, macro adaptation, and application or actual machine tool parameters. Specifications for the program language, machine control unit, and machine tool are applied. 

Syntax and Semantics of CCTL Definition 36 (Syntax of CCTL)... 

This definition means that CjjH23 or a bigger alkyl residue is present. This condition cannot be described in the present syntax of MOLGEN. For the determination of classifiers in Subsection 8.5.2, this condition was replaced with C1JH23. 

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