BigFishv4.1 User Manual
Contents
1. REVIEW J crear J Select scarred Notes Review 4 Clear 4 Review Clear 5 Search 6 Review Clear 6 No U A A S Characteristics Search ID Type A Bar is y shaped thicker at the anterior end i _HOBIDMS Catalogue H0556 H05 2 73 Records i ing fi i i CA AEIAECEANE To avoid freezing files allow image to load before moving on BigFishv4 1 User Manual 6 7 Last update 26 01 10 lf the whale does not come up with the first search different characteristics can be selected and the remaining whales excluding those already compared will be searched This can be done six consecutive times and a log is kept of the characteristics used for each search The results of searches can be reviewed Search tables logs and selected characteristics can be reset The user can select all records the remainder at any point in the process or whales with recorded scars ID Search Protocols provide information for users on how to search systematically The principle of coding southern right whale features for matching purposes was adopted from the New England Aquarium s North Atlantic Right Whale Catalogue methods as demonstrated by Phillip Hamilton at a 2004 workshop of southern right whale researchers and was adapted for Australian data The search software CodeCompare was developed independently 3 Instructions protocols and manuals The us2. data collections DataEntryOther The seven Filter tables are used by the software during the CodeCompare process and should not be deleted Contents will vary according to user actions BigFishv4 1 User Manual 3 7 Last update 26 01 10 Queries used with Forms 1 BasicQuery DCodes calculates paths for images according to whale ID 2 BasicQueryResightBy Year links resight data to calving cycle data 3 BQMortality ResightBy Year links Resight data to Mortality data 4 The without matching queries are used to find table anomalies 5 Query 1 2 and 3 are empty for user specified design These are accessed from Queries and analysis Forms Forms are consistent in the way they handle data entry and browsing a Enter data by tabbing L to R Some fields are locked and do not require data eg H9134 They are colour coded grey b Required fields are colour coded pink eg HO003 It is impossible to leave the record until required fields are entered c Drop menus for category fields facilitate rapid accurate data entry d Records update automatically when the user moves to a new record or clicks the Close button e Date fields are formatted as short date eg 8 11 2006 f Time fields are formatted as twenty four hour short time eg 14 30 g A Find by ID selection drop menu takes the user to selected record h A generic Find option signified by the binocular icon is available on all forms i Most
3. xIs OtherSightings xls OtherResightLocations xls CalvingCycles xlis a oo system For CodeCompare allows the user to match whales by entering specific identifying characteristics and callosity pattern features and then querying the data for matching individuals The Search Results form allows the user to scan through the selected whales accessing further images if required Search instructions Hosse Search Results First time users please read Characteristics log Gender U 7 Reset characteristics ae r ai Type Mi Reser ay Dorsal Blaze A Gender v keset M Callosity patterns Characteristics log Grey N Right Lip P v P Colour and markings _ Scar 0 ae l Left Lip P v P Right Island 5 Dorsal Blaze v Reset lt Ta __ s Bonnet eroded y i v Left Island 3 crey wi Resee O cal feaneet lee oo wes Central feature v EEE Right Lip P 14 Callosity patterns Fuzzy Complex Rezet ITITI Ti Left Lip P Right Island Reset eF o Coaming v Right Bar Left Island v o Right Sub a f Left Bar Right Bar Reset Left Sub rr Bonnet Erosion Y l g CentralFeature Left Bar v w i Post Blow v Reret o a CE f Complex Search for selected characteristics Coaming m Right Sub Level 1 Select remainder adi Left Sub Level 2 Select all records Post Blow
4. BigFishv4 1 User Manual www skadia org au Index MN sets estes cde este E cece ees E Page 2 a USE siinne iinan Page 2 FOT T a ss pe ewer S N EE Page 2 LELEI Page 3 CO a E E Page 4 E e A E E A Page 4 Menu Links to Forms and sub menus Data Vb ee sietsoet once iene aeacenectpnwncinnbeatwunendeesnednasoemetanssneeeck Page 4 ID Coding Data Entry 0 0 cccccecceecseeeseeeeseeeeseeeesaaees Page 5 Wildlife and other observations cccccsseeeceeeeeeeeeees Page 5 Bethe ae R nse Page 5 BackUp AIG orisni Page 6 Pun i Ode ONTE ae poate EEEE EERENS Page 6 Queries and analysis Calculate calving CYCIOS ccccceccccssececeseeeeceseeeseseeseees Page 7 secs eee eee eee Page 7 If this User Manual is being applied to BigFishv3 it should be noted that there is a minor bug fix available for version 3 available on the Skadia web site www skadia org au BigFishv4 1 User Manual 1 7 Last update 26 01 10 Introduction BigFishv4 1 is a data management system that brings together scientific survey data calculations images documents and software This version has been built in Access 2003 but runs equally well in Access 2007 It is customised to deal with Head of Bight whale data Its primary purpose is to facilitate e efficient data entry storage and retrieval of a variety of data and documents e support for whale identification using images e support for dynamic analysis of calving cycles and other sighting infor
5. Coding Protocol View images Callosity patterns l Right Lip p Complex Left Lip Coaming Right Bar Right Sub Left Sub Left Bar Bonnet Erosion HME EE Post Blow Central Feature Dorsal o 4 Notes Record M 4 60f6 bombs Search characteristics for later filtering When coding a whale all fields should have one option entered Consult the ID Coding Protocol prior to coding whales Wildlife and other observations data entry The drop menu options on Species CraftType will change according to your selection of Category to facilitate querying based on this field If you select Debris or Other the BigFish Wildlife and other observations data entry Record ID Date Time M43 24 09 2006 Location Species Craft type 7km Category 11 45 Aircraft Bottlenose dolphin vi 1 432 26 09 2006 3 20 Wildlife w HOB Bay i Bottlenose dolphin yfi Number Notes Aircraft v Fixed wing plane Helicopter Whale watch plane umber z Species CraftType field will be filled automatically and locked Enter details in notes Edit instructions protocols and manuals The user can open word versions of documents to edit if necessary To maintain currency updated versions should be converted to pdf files to replace old versions 5 7 Last update 26 01 10 Back up data tables and Word f
6. H0001_040710_0126_C_Ro jpg ID only This is the first image found E 10003 pepeg Tp 4 HO001_040826_0006_C_H jpaq by the database All images are roos niece in jog format Refer to Catalogue Ho007 Maintenance Instructions x Wi Behaviourmemo doc Folders F X BehaviourMemo pdf c LinkFiles contains subfolders for aa oy Felden co z P A FieldMemo pdf associated documents and O cota Eo spreadsheets as shown in diagram O G Menuak Z mortalitymemo paf Memos O Protocols O ReportsPubs O Spreadsheets 5 WhaleFinder BigFishv4 1 User Manual 2 7 Last update 26 01 10 Tables Except in one instance tables are not related Relating happens during coding as appropriate and provides for greater user flexibility during data input 1 Relationships IDCoding IDCodingScars IDScar A DNotObserved IDCode SearchIDType Risland The principal table ResightBy Year stores whale sightings according to year ClifFCowCalFP CliffAdults The DCoding and DCodingScar tables have a one to one relationship and store the identification characteristics of the whales Two tables are used here to facilitate faster filtering during CodeCompare when details of scarring are of secondary importance The Mortality table records sightings of dead whales which may or may not have ID codes The OtherResightLocations table stores sightings of recorded whales in locations oth
7. er than Head of Bight Only whales seen at Head of Bight at some time are included The OtherSightings table stores sightings of eg wildlife planes etc other than right whales The CensusData table records total daily right whale counts by population class and weather conditions There are extra fields currently blank that can be used to split counts into bay and cliff by population class giving sub totals and a grand total The CalvingCycles table stores information only on whales that have been observed to have calved at least once It is filtered and calculated by the software when the form is opened and again each time a different specified calving interval is selected The default interval is set to 3 years On recalculation the CalvingCycles table is saved so at any time this table will have results pertaining to the last selected calving interval The calving interval is used in some calculations All this is seamless for the user but must be kept in mind if backed up copies of this table are perused The eighteen Codexxx tables are linked to form fields for input via drop menus These can be added to or Baie altered by the user if characteristics coding should bil peste EE e change If altering a Code table note that the ID field P r controls the order of appearance in the drop menu Note also that if coding remains consistent across S AN oaa a sighting locations and data collections there is a a more relevance in comparing such
8. er can browse these documents from this easy to find location 4 Queries and analysis Browse calving cycles Displays only individuals that have had at least one calf and calculates the intervals between calving Intervals greater than 4 are excluded in calculation of Mean calving interval and Proportion of intervals equal to selected interval This is due to methodological decisions for data analysis Mean calving interval sum of intervals less than 5yrs number of intervals less than 5yrs Proportion of intervals equal to selected interval number of intervals equal to selected interval number of intervals less than 5yrs Peak annual count sheet opens a spreadsheet of annual peak counts and graphs Queries The three queries are undeveloped and can be used to interrogate the data in whatever way you wish 5 Browse data and publications This section allows the user to browse data tables and publications in read only format Contact Web site www skadia org au Email rpirzi ozemail com au BigFishv4 1 User Manual Tit Last update 26 01 10
9. forms are intuitive and require no further explanation j Protocol or instruction documents should be read by new users and consulted for further help k Data forms close hierarchically to their parent menus A documentation opened from forms will generally be pdf format except when opened from Data Maintenance menu where it will be opened as a doc file to facilitate editing Main menu BigFishv4 1 is divided into the five sections accessible from the main menu data maintenance comparing coded characteristics to identify individual whales protocols and manuals data analysis and data and publications browsing The system is highly intuitive but explanations of some aspects of each section are detailed below 1 Data maintenance BigF This section allows maintenance of data and related documentation including entry and editing of data to tables editing of memos and protocols file backup or replacement Enter census data Update behaviour memo Back up data and files tracking ID number revisions and checking Enter ID coding Update mortality memo Import backup tables for anomalies in tables Most forms are iaa m intuitive and require no explanation A few less obvious features are mentioned below The instructions and protocols menu should be consulted for further information Enter other locations data Enter
10. iles Read instructions on the form before backing up Your Access tables will be saved into the Backup folder replacing files with the same name that may be in that folder It is a good idea to date backups and paste them to a different folder No responsibility will be taken for overwritten files and loss of data You can back up individual tables or select the Backup all tables button Word and Excel documents can also be backed up from this menu by opening the appropriate folders in Windows Explorer and copying and pasting files to a backup location Import backup tables You will probably only need this facility if you are updating your system or adding data collected outside the system Spreadsheets to be imported should be placed in the Backup folder Beware Tables can be overwritten Read the instructions on the form If you have to import use this menu option because other aspects of the software require the set table structure The Continue button gives a further warning and if the user selects Yes the import buttons are enabled Run CodeCompare Import tables from Backup folder Close Note Imported tables will overwrite existing Continue database tables cantons Tables for import must be stored in the Backup Open Backup folder folder under the following file names Census xls Microsoft Office Access Resight xis IDCoding xls This process is irreversible Continue iIDCodingScars xls Mortality
11. mation through filtering and calculations Conditions of use Copyright and Intellectual Property The BigFishv4 1 data management system is covered by Copyright and Intellectual Property laws Copyright and Intellectual Property of the system excluding data is owned by Rebecca Pirzl and the South Australian Department for Environment and Heritage Please contact rpirzi ozemail com au to discuss appropriate permissions if you wish to use or adapt this system Conditions of use are provided on the opening menu page Folder Structures For your database to link seamlessly to Folders X_Bcebingcrces ns i CensusData xls images and documents you must follow Ms A Salar ds 2 E 1DCodi the folder structure given here E Catalogue Dvortaky xe miii T R xls 1 Your project folder called DMS in this ea SS othersghtigs xl example must contain the Access ieee ii database BigFishv4 1 and folders as ED oie listed in the diagram WhaleFinder a Backup is used to save backed up data tables from the database It is also the location from which the import tables function operates es Address a D 4_HOB DMS Catalogue HO001 b Catalogue contains folders of images Folders x E 0001 ipo a Hooo1 _000205_ _L j for each whale These are named Ba a Hoo01_001631_c H bes according to the ID of the whale The Catalogue Hie Sel g H0001_040710_0123_C_R jpg best image is copied and named by ae He ie
12. wildlife and other observations BigFishv4 1 User Manual 4 7 Last update 26 01 10 BigFishv4 1 User Manual ID coding data entry Update new records The coding data and scar data are in two tables linked on a one to one basis This allows for faster searching when running the CodeCompare facility but it also means that after adding new ID coding records the data must be updated This can be done from time to time via the Update new records button or alternatively it will be carried out when the form is closed This makes closing a little slow The View Photos button opens the image viewer with further photos of the selected whale or a message if no photos exist See Installation Manual The Display as Datasheet button opens the current data as a datasheet table to facilitate easy filtering Drop menus facilitate coded entry of specified BigFish Version ID coding data entry Fino te a p Close ID Code Update Name gameten Gender Search IDType A w Pigmentation Dorsal Blaze age Grey Callosity patterns Right Island magagaga a Left Island arks and scars Not observed Observed noscars marks deformity lump lesion _ shark killer whale other predatory entanglement vessel prop strike other non predatory undetermined origin Other ID codes 1 Display as datasheet View ID
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