1. Domain Specific Language for Medical Laboratory Team #6 Vikram Sriram Venkat Narasimha Bhyravabotla Haritha Rani Jadcherla Saloti Annapurna Mentor Mr. Ravi Ganta Instructor Dr. Kwok-Bun Yue

2. Agenda Background Problems with current system Solution Architecture diagram Implementation of Solution Demo Website Conclusion References 2 CSCI 6838: Team#6 Language for Array Data Processing

3. Background Medical laboratory Microplate Laboratory specific operations on microplate Problems 3 CSCI 6838: Team#6 Language for Array Data Processing

4. Medical Laboratory Physicians Tests – Immunoassay Results – Observations – Photons emitted from the test sample Different tools exist to read results from microplate 4 CSCI 6838: Team#6 Language for Array Data Processing

5. Microplate 5 A Microtiter plate (spelled Microtitre in Europe) or microplate is a flat plate with multiple "wells" used as small test tubes. [1] Figure 1: Microplate [2]

6. Operations on Microplate Shaking Light projecting Adding chemicals/catalysts Reading the number of photons 6 CSCI 6838: Team#6 Language for Array Data Processing

7. Immunoassay An immunoassay is a biochemical test that measures the concentration of a substance in a biological liquid, typically serum or urine, using the reaction of an antibody or antibodies to its antigen. 7 [3] CSCI 6838: Team#6 Language for Array Data Processing

8. 8 Patient “A” test results with two tests for D1, D2 as Tags CSCI 6838: Team#6 Language for Array Data Processing

9. Problems Tag based operations Storing and accessing results General purpose Programming Languages( GPLs) do not satisfy physicians requirements Overhead on physician to learn GPL Preciseness of results 9 CSCI 6838: Team#6 Language for Array Data Processing

10. 10 Storing and accessing results 1.Paper Based[4] 2.Table Based [5] CSCI 6838: Team#6 Language for Array Data Processing

11. Solution Domain Specific Language for laboratory specific 11 CSCI 6838: Team#6 Language for Array Data Processing

12. Motivation towards DSL Problems with current system – Memory problems – End user overheads – Disadvantages with programming languages Advantages of having a DSL specific to laboratory – Domain specific semantics – User friendly syntax – Overcoming problems with programming languages 12 CSCI 6838: Team#6 Language for Array Data Processing

13. Why only DSL ? Most programming language doesn’t supports end users syntaxes GPLs can address solution specific to domain but not optimal End user has to learn syntaxes in GPL 13 CSCI 6838: Team#6 Language for Array Data Processing

14. Lexer Parser ECLIPSE IDE Mat.java Mat.txt Library.java Run.java Readingfile.jav a Architecture Diagram 14 Run Console Grammar Lexer Parser Generate ANTLR IDE CSCI 6838: Team#6 Language for Array Data Processing

15. Implementation of DSL Language specification Grammar design Lexer and Parser generation 15 CSCI 6838: Team#6 Language for Array Data Processing

16. Language Specification Problem domain semantics are analyzed Description of the new syntaxes is described in this document – Expression syntax – Accessing matrix values – Function syntax Target language is Java 16 CSCI 6838: Team#6 Language for Array Data Processing

17. Example For example the following syntax will return a set of values stored in a matrix with row index 1,2, and column index as 2,3. M1[{1,2},{2,3}] Following example will assign a value to matrix M1 whose tag is value with 32.12 M1[1,2].value=32.12 17 CSCI 6838: Team#6 Language for Array Data Processing

18. Grammar Design Automated tools are used for generating Lexer and parser code Example: – ANTLR ( Another Tool for Language Recognizer) – Eclipse – ANTLR plug-in for Eclipse 18 CSCI 6838: Team#6 Language for Array Data Processing

19. Lexer and Parser generation 19 CSCI 6838: Team#6 Language for Array Data Processing

20. 20 Matrix Access Single Index Multiple Index – Ordered Set – Range – Wildcard(* means “all”) CSCI 6838: Team#6 Language for Array Data Processing

21. Some example syntaxes for laboratory specific Single access M1[1,2] Range M1[{0..2},1] Ordered set M1[{0,1,2},1] Wild card M1[*,*] Avg(1,2,3) Min(1,2,3) 21 M1 0.10.20.3 1.11.21.3 2.12.22.3 CSCI 6838: Team#6 Language for Array Data Processing

22. Tags Properties of tags – Name – Value Operations on tags – Add – Delete – Set

23. More about our website http://dcm.uhcl.edu/c423008fasalotia/caps10g6/ default.htm 23 CSCI 6838: Team#6 Language for Array Data Processing

24. DEMO 24 CSCI 6838: Team#6 Language for Array Data Processing

25. Conclusion There are many possible solutions One good solution DSL (Domain Specification Language) Satisfy all requirements User Friendly Accuracy 25 CSCI 6838: Team#6 Language for Array Data Processing

26. References [1] http://en.wikipedia.org/wiki/Microtiter_plate. [2] http://www- odp.tamu.edu/publications/201_IR/chap_05/im ages/05_f10.gif [3] http://en.wikipedia.org/wiki/Immunoassay 26 CSCI 6838: Team#6 Language for Array Data Processing

27. 27 References http://en.wikipedia.org/wiki/Domain- specific_language#Advantages_and_disadvantages http://en.wikipedia.org/wiki/Programming_language http://homepages.cwi.nl/~arie/papers/dslbib/ http://english.njhuahong.com/uploadfile/sb-jc4.jpg http://www- odp.tamu.edu/publications/201_IR/chap_05/images/0 5_f10.gif http://www.marylandfluwatch.org/_/rsrc/1241811361 336/clinical-laboratories/8401_lores.jpg CSCI 6838: Team#6 Language for Array Data Processing

28. 28 Questions CSCI 6838: Team#6 Language for Array Data Processing

29. 29 CSCI 6838: Team#6 Language for Array Data Processing