The Gifa program Version 4.0

• THE GIFA PROGRAM.VERSION 4.0
• PRESENTATION
  • Classical processing includes :
  • Graphic capabilities
  • Special processing includes :
  • A Complete set of Macro :
  • The User Interface is characterised by :
• FIRST CONTACT WITH THE PROGRAM.
  • Entering the program
  • Principe of operation
  • Entering Parameters
• BASIC GRAPHIC USER INTERFACE
  • Display and Zooming
  • Menu Set-up
  • Basic environment
    • File menu
    • Mode menu
    • Display menu
    • Move menu
  • Processing
    • Apodisation menu
    • Proc 1D menu
    • Proc 2D menu
  • 3D menus
    • Proc 3D
    • Display 3D
    • 3D on file
  • Optional menus
    • Advanced proc menu
    • MaxEnt menu
    • Linear Prediction menu
    • Plot menu
    • Peaks menu
    • Unix Menu
• OPERATION PRINCIPLE
  • Different kind of commands
  • Entering spectral parameter
  • General set-up
• BASIC PROCESSING
  • Loading and Saving data-sets : READ, WRITE, READx, WRITEx
  • Apodisation : EM, LB, GM, GB, SIN, SQSIN, TM
  • Zero-filling : CHSIZE
  • Fourier transform : REVF, FT, IFT, RFT, IRFT, FTBIS, IFTBIS, INVF, REVERSE
  • Data-type : ITYPE
  • Phasing : PHASE, PH, HPHASE, apsl (automatic phasing)
  • ADD, ADDH, ADDDATA, MULT, MULTDATA
  • MEDIAN
  • Baseline correction : BCORR
  • EVALN, ADDBASE, NOISE, SHIFT
  • DSA
• SPECTRAL PARAMETERS
  • SPECW, OFFSET, UNIT, FREQ
  • size, list
  • EXTRACT
• DISPLAY AND GRAPHIC INTERACTION
  • DISP1D, DISP2D
  • SCALE, ITYPE, ABSMAX, SIGN, VHEIGHT, CLEAR
  • CDISP2D, LEVEL, LOGA, CCOLOR
  • COLOR, SCOLOR, Choice of Colours
  • ZOOM, ZM
  • point
  • SHOW
  • FREEZE
  • REF, UNREF, REFMACRO
• PLOTTING
  • CX, CY, ROTATE, PLOTTER, CONFIG
  • PLOT, PEN, PLOT, PAGE, PLOTOFFSET, TITLE, PLOT?, FORGET
  • PLOTAXIS, PLOTAXIS?, oe
  • STPL, STPL?
• SEVERAL BUFFERS AVAILABLE
  • DATA ADDDATA
  • FILTER, WINDOW
  • PUT, GET, SHOW, APPLY
• HANDLING OF 2D AND 3D DATA-SETS
  • Introduction to 2D and 3D processing
  • Different commands
  • Commands more specific to 2D data-sets or 3D data-set
    • RZOOM (2D)
    • COL and ROW (2D & 3D)
    • PROJ (2D & 3D)
    • FLIP and FLOP (2D & 3D)
    • TRANSPOSE (2D & 3D)
    • PLANE (3D)
    • VERT (3D)
    • DIAG (2D & 3D)
• DISPLAYING AND PLOTTING 3D DATA-SETS
  • Plane by Plane
  • Displaying and Plotting 3D Volumes
    • DISP3D, REF3D
    • CX, CY, CZ, ALPHA, BETA, GAMA, AXIS3D, ZNOT, OFFSET3D, SCALE3D
    • DISP3D?, CHECK3D
    • PLOT3D
• WORKING ON FILE RATHER THAN IN MEMORY
  • Introduction to the cache system
  • Detailed Principle of Operation
  • Commands for using the Cache
    • JOIN, DISJOIN, LISTFILEC
    • dataset, GETHEADER, PUTHEADER
    • GETC, PUTC
    • SHOWC
    • FLUSH, FLUSHCACHE
    • NEWFILEC
    • READC, WRITEC
    • Using macro : proc2d and proc3d
• UNDERSTANDING THE MEMORY SET-UP
• PEAK-TABLES, PEAK-PICKING LINE-FITTING AND INTEGRATION, THE PARIS MODULE
  • MAX, MINIMAX, PEAK
  • Viewing : PKLIST, SHOWPEAK, SHOWPEAKS, PLOTPEAKS
  • SETPEAK
  • Storing : PKREAD, PKWRITE, PKRESET
  • PKPROJ, PKSYM
  • Integrating : INTEG, MSKINTEG, MODIF_AMOEBA, mskread, mskwrite
  • Line fitting : LINEFIT LINEFITD
  • SOMREC
  • INT1D
• MORE SPECIFIC COMMANDS
  • SIMU, SIMUN, ONE, ZERO
  • SHOWLINE, SHOWTEXT, PLOTLINES, PLOTTEXTS, PLOTLINE, PLOTTEXT
  • PRINT, ALERT, MESSAGE
• TEXT FILE INPUT / OUTPUT
  • LOG_FILE CONNECT DISCONNECT
  • OPEN CLOSE FPRINT <file_name eof(file_name)
  • Formatted output, the printf, fprintf, sprintf macros
• SPECIAL AND GENERAL PURPOSE COMMANDS
  • HELP
  • EXIT, QUIT, or BYE
  • ^C
  • TIMER
  • VERBOSE and DEBUG
  • REF, UNREF
  • SH, Unix calls
  • CD
• SYNTAX OF THE GIFA INPUT.
• VARIABLES
  • SET, UNSET, MUNSET, DUMP
  • Internal variables
• SUPPORT FOR DATA-BASES
  • DBOPEN, DBCLOSE
• EVALUATED EXPRESSIONS
  • Liste of functions and operators
• PROGRAMMING IN MACRO
  • Introduction to the control language
    • The GifaPath
    • The startup.g macro
    • REFMACRO
    • SETVAL, SETPEAK
    • FOR, WHILE, IF, ERROR, GOTO
    • INITINPROGRESS, INPROGRESS
    • SETPATH, SETPROMPT
  • Interactive macros
  • Passing parameters to macros
  • Examples :
• GRAPHIC USER INTERFACE
  • BUTTONBOX, CLOSEBOX
  • MESSAGE
  • FORMBOX, DIALOGBOX
• ERROR HANDLING
• BATCH MODE
  • On All Systems
• FREQUENTLY ASKED QUESTIONS
  • Q : How do I refere to Gifa in my publication ?
  • Q : I get the message - Licence is NON-VALID - ?
  • Q : I get the message - startup.g : command unknown - ?
  • Q : I get the message - No graphic possible - ?
  • Q : I get the message - Killed - and Gifa does not start ?
  • Q : I get the message - Cannot open the gifa.log file - ?
  • Q : How do I compare spectra in absolute display scales
  • Q : Why are spectra completely shifted in super1d/super2d
  • Q : How do I transfer data from my spectrometer to Gifa ?
  • Q : I get the message - Size too big for operation - ?
  • Q : What is the - Overflow xxx buffer - message ?
  • Q : Why am I sometimes prompted for the overflow and sometimes not ?
  • Q : My spectra show up completely scrambled after FT ?
  • Q : I processed Bruker-DMX data-sets, what is going on ?
  • Q : What is the analytical counter part of the SIN command ?
  • Q : How can I start Gifa in background job ?
  • Q : Plot does not work
  • Q : set si1_2d = 2048 does not work
  • Q : SH just returns, and do nothing
  • Q : my log file does not go away when I exit with : exit n
  • Q : What is the Gifa data format
• ACKNOWLEDGEMENT