Standard Operating Procedure

PREPARATION 

    1. MAKE SURE ALL COMPONENTS ARE FUNCTIONAL.
    2. CONSULT RESULTS OF PREVIOUSLY PERFORMED POWER ANALYSES FOR THE STANDARD NUMBER OF IMAGES PER TRANSECT AND NUMBER OF POINTS PER IMAGE TO BE ANALYZED.
    3. CHECK TO SEE THAT RANDOM POINT FILES ARE AVAILABLE ON CD (FILENAME: CD.DAT) ALONG WITH TRANSECT IMAGES. THIS POINT SOURCE MUST BE USED SO THAT EACH IMAGE IS REPEATABLY PRESENTED TO ANY INVESTIGATOR AT ANY LAB WITH ITS OWN UNIQUE SET OF RANDOM POINTS.
    4. HAVE A LIST OF FRAMES TO ANALYZE. THESE ARE SELECTED FROM EACH TRANSECT IN A STRATIFIED RANDOM FASHION. 
PROCEDURES 

    1. RUN "PointCount FOR CORAL REEFS" BY DOUBLE-CLICKING ON THE ICON OR ON EPA_CRAP.EXE (EPA CORAL REEF ASSESSMENT PROGRAM) IN ITS RESIDENT DIRECTORY.
    2. "POINTCOUNT" IS A WINDOWS PROGRAM, SO THAT MENUS MAY BE NEGOTIATED AT ANY TIME. THE FOLLOWING IS THE USUAL PROCEDURE FOR ANALYZING AN IMAGE IN A TRANSECT THAT HAS BEEN WRITTEN TO CD WITH AN ACCOMPANYING CD.DAT INFORMATION FILE.
    3. WHEN PROMPTED, LOG IN WITH YOUR USER NAME: FIRST LETTER OF THE FIRST NAME PLUS COMPLETE LAST NAME, ALL IN LOWER CASE WITH NO SPACES.
    4. YOU MAY WANT TO MINIMIZE NON-"POINTCOUNT" WINDOWS (E.G., PROGRAM AND FILE MANAGERS) FOR A CLEARER SCREEN-DESK SPACE.
    5. UNDER THE OPTIONS MENU, SELECT "INSTITUTION" AND CHECK TO SEE THAT YOUR INSTITUTION (FMRI, UGA, OR UCSC) IS LISTED.
    6. UNDER THE OPTIONS MENU, SELECT "NUMBER OF POINTS" AND ENTER THE STANDARD NUMBER OF POINTS PER FRAME TO ANALYZE AS DETERMINED BY THE POWER ANALYSIS.
    7. UNDER THE OPTIONS MENU, "AUTOMATICALLY TAG IMAGES" AND "AUTOMATICALLY SAVE DATA" ARE ENABLED (CHECKED) BY DEFAULT. LOOK AT THE MENU TO BE SURE THIS IS STILL THE CASE.

    8. UNDER THE FILE MENU, CHOOSE "OPEN SITE IMAGE." NEGOTIATE THROUGH DRIVES AND DIRECTORIES  TO THE TRANSECT SET AND FILE YOU WANT TO ANALYZE. FILENAMES AND DIRECTORIES FOLLOW THE NAMING PROTOCOL OUTLINED IN SOP 8.1.1 IMAGE CONVERSION.
    9. AFTER THE IMAGE FILENAME IS SELECTED, THE PROGRAM WILL AUTOMATICALLY LOAD "IMAGE-PRO PLUS," DISPLAY THE IMAGE, AND OVERLAY THE SPECIFIED NUMBER OF RANDOM POINTS.
    10. FILE INFORMATION AUTOMATICALLY APPEARS IN THE "POINT TAG" IDENTIFICATION BOX, AND THE CURSOR BY DEFAULT APPEARS IN THE BLANK SPACE FOR POINT NUMBER ONE (AND WILL ADVANCE AUTOMATICALLY AS SUBSEQUENT IDENTIFICATIONS ARE MADE).
    11. CLICK ON LABELLED BUTTONS IN THE "IDENTIFICATION" TOOL TO ASSIGN IDENTIFICATIONS FOR POINT NUMBER ONE, THEN POINT NUMBER TWO, ETC.
    12. MULTIPLE IDENTIFICATIONS MAY BE MADE BY HOLDING DOWN THE SHIFT BUTTON (FOR SEQUENTIAL CHOICES) OR THE CONTROL BUTTON (FOR NON-SEQUENTIAL CHOICES) AND CLICKING ON POINT NUMBERS OF YOUR SELECTION IN THE "POINT TAG" IDENTIFICATION BOX.
    13. WHEN ALL IDENTIFICATIONS FOR A FRAME HAVE BEEN MADE, DATA IS AUTOMATICALLY SAVED WHEN EITHER A NEW FRAME IS CALLED UP OR THE PROGRAM IS EXITED. DATA FILES MAY ALSO BE SAVED AT ANY POINT BY SELECTING EITHER "SAVE DATA FILE" OR "SAVE DATA FILE AS" UNDER THE FILE MENU. UNDER THE NORMAL TRANSECT IDENTIFICATION PROCESS, THE "SAVE DATA" PROCESS WILL ONLY BE NECESSARY FOR THE FIRST FILE IN A NEW STATION. SUBSEQUENT IDENTIFICATIONS DURING THE SESSION WILL THEN BE SAVED AUTOMATICALLY TO THAT DATA FILE.
    14. WHEN A SESSION IS FINISHED, CHOOSE "EXIT" FROM THE FILE MENU. IF A STATION HAS NOT BEEN COMPLETED IN A SESSION, IN A SUBSEQUENT SESSION THE TRANSECT IMAGES FOR THAT STATION WILL STILL HAVE THEIR DATA AUTOMATICALLY APPENDED TO THE APPROPRIATE DATA FILES.
    15. WHEN IMAGES FOR AN ENTIRE STATION HAVE BEEN IDENTIFIED AND SAVED, CHOOSE "CREATE CSV FILE" UNDER THE UTILITIES MENU. THIS CSV FILE APPEARS IN THE "OUTDATA" SUBDIRECTORY OF THE MAIN IMAGE ANALYSIS DIRECTORY. IT CONTAINS ALL OF THE INFORMATION FOR THE ENTIRE STATION, AND CAN BE CALLED UP IN ANY SPREADSHEET PROGRAM.

     

     

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