1. SCAMIT and Morphbank Nov 18 2008 - City of San Diego Environmental Monitoring Lab Nov 18 2008 - City of San Diego Environmental Monitoring Lab Nov 19 2008 - LACSD Marine Biology Lab Nov 19 2008 - LACSD Marine Biology Lab Nov 20 2008 - OCSD Environmental and Ocean Monitoring Section Nov 20 2008 - OCSD Environmental and Ocean Monitoring Section Deborah Paul, Greg Riccardi, Austin Mast, Katja Seltmann, Chantelle Dorsey

2. Topics Morphbank UpdateMorphbank Update morphbank.netmorphbank.net New FeaturesNew Features New Data Provider WorkbookNew Data Provider Workbook

3. Morphbank at TDWGMorphbank at TDWG CToLCToL Usability WorkshopUsability Workshop InteroperabilityInteroperability ServicesServices FSU Department of Scientific Computing SupportFSU Department of Scientific Computing Support Morphbank Update

4. morphbank.net Getting a Morphbank accountGetting a Morphbank account Log inLog in Account settingsAccount settings My ManagerMy Manager Tools > SubmitTools > Submit Where to EditWhere to Edit

5. morphbank.net Tools > Login > Request user accountTools > Login > Request user account

6. morphbank.net Login > Tools > Account SettingsLogin > Tools > Account Settings

7. My Manager > Morphbank ObjectsMy Manager > Morphbank Objects morphbank.net Tellina

8. My Manager > CollectionsMy Manager > Collections morphbank.net

9. morphbank.net Click to access metadata for all Morphbank objectsClick to access metadata for all Morphbank objects

10. morphbank.net Contributor, Submitter, GroupContributor, Submitter, Group –Morphbank Names and Morphbank Ids

11. morphbank.net Tools > SubmitTools > Submit –Choose Group, –then Tools > Submit: Locality, Specimen, View, Image, Publication, Taxon Name Click opens PopupClick opens Popup –Choose exisiting –or Add New Specimen Id & View Id autofillSpecimen Id & View Id autofill

12. morphbank.net Click to edit objectsClick to edit objects

13. New Features ServicesServices –http://services.morphbank.net/mb2/ http://services.morphbank.net/mb2/ RSS feeds, GoogleMaps, GoogleReaderRSS feeds, GoogleMaps, GoogleReader User-defined fieldsUser-defined fields Provider UidsProvider Uids

14. http://services.morphbank.net/mb2/ Use services toUse services to –find geolocated Morphbank objects with GoogleMaps –retrieve ids for Morphbank objects –get data in XML format –create custom RSS feeds, Google Reader

15. Creates a database queryCreates a database query –see the API API Returns output in format selectedReturns output in format selected Keep up with the latest changesKeep up with the latest changes Allows dynamic searchingAllows dynamic searching services.morphbank.net/mb2/

16. services.morphbank.net Query for geolocated objectsQuery for geolocated objects http://services.morphbank.net/mb2/request?method=search&objecttype=Image&objecttype=Specimen&ke ywords=SERNEC&geolocated=true&limit=10&firstResult=0&user=&group=&change=&lastDateChang ed=&numChangeDays=1&id=&taxonName=&format=thumb

17. services.morphbank.net Query for Image idsQuery for Image ids http://services.morphbank.net/mb2/request?method=search&objecttype=Image&keywo rds=wendy+storms&limit=15&firstResult=0&user=&group=&change=&lastDateChan ged=&numChangeDays=&id=&taxonName=&format=idRetrieve Image ids

18. services.morphbank.net/mb2/ Query returns XML http://services.morphbank.net/mb2/request?method=search&objecttype=Specimen&key words=CToL&limit=1&firstResult=0&user=&group=&change=&lastDateChanged=&nu mChangeDays=&id=&taxonName=&format=svc SchemaSchema Request TypeRequest Type Number AffectedNumber Affected Object TypeObject Type –specimen –Morphbank Id –Provider UID User PropertyUser Property

19. Intermission - time for change

20. Time for change New Morphbank Custom WorkbookNew Morphbank Custom Workbook –Some features DarwinCore Schema fieldsDarwinCore Schema fields Few required fieldsFew required fields User PropertiesUser Properties Provider UIDsProvider UIDs Potential Dual UsePotential Dual Use

21. New Morphbank Workbook –SCAMIT image and data processing protocol Standardize the image uids, image namingStandardize the image uids, image naming Avoid spaces & special characters in file namesAvoid spaces & special characters in file names Be in the SCAMIT group when uploadingBe in the SCAMIT group when uploading Submitters need Morphbank accountSubmitters need Morphbank account Start uploading minimal setsStart uploading minimal sets –facilitates tweaking the overall process –speeds up the learning curve –Basic Excel Workbook Minimal fields required from 5 Morphbank Objects: Image, Specimen, View, Locality, External LinksMinimal fields required from 5 Morphbank Objects: Image, Specimen, View, Locality, External Links Provider UIDs encouragedProvider UIDs encouraged User Properties supportedUser Properties supported –Workbook for Morphbank and SCAMIT Databases General PointsGeneral Points

22. New Morphbank Workbook Useful URLsUseful URLs –Download the new workbook http://www.morphbank.net/docs/customWorkbook.xlshttp://www.morphbank.net/docs/customWorkbook.xlshttp://www.morphbank.net/docs/customWorkbook.xls –Help with the workbook fields http://www.morphbank.net/About/Manual/customWorkbook.phphttp://www.morphbank.net/About/Manual/customWorkbook.phphttp://www.morphbank.net/About/Manual/customWorkbook.php –Current Morphbank services xml schema http://www.morphbank.net/schema/services.xsdhttp://www.morphbank.net/schema/services.xsdhttp://www.morphbank.net/schema/services.xsd –Darwin Core Fields (DarwinCore2 aka v1.2) http://wiki.tdwg.org/twiki/bin/view/DarwinCore/DarwinCoreVersionshttp://wiki.tdwg.org/twiki/bin/view/DarwinCore/DarwinCoreVersionshttp://wiki.tdwg.org/twiki/bin/view/DarwinCore/DarwinCoreVersions

23. New Morphbank Workbook Workbook has 3 worksheetsWorkbook has 3 worksheets –Sheet 1: for data –Sheet 2: for user Properties –Sheet 3: for Contributor, Submitter, Group, & Date-to-Publish information Sheet 1 – Field Descriptions in Morphbank Online User ManualSheet 1 – Field Descriptions in Morphbank Online User Manual –http://www.morphbank.net/About/Manual/customWorkbook.php http://www.morphbank.net/About/Manual/customWorkbook.php instructions for this workbookinstructions for this workbook links to Field descriptionslinks to Field descriptions Sheet 1Sheet 1 –color-coded by Morphbank object types: image, specimen, view, locality –minimal required fields (image file name) could submit with only image file name + descriptioncould submit with only image file name + description –fields not needed can be deleted –extra and External Links can be added by the provider Decide which fields to use & how to use them, consistency mattersDecide which fields to use & how to use them, consistency matters Rename the workbook & Save a copyRename the workbook & Save a copy Send it and images to MorphbankSend it and images to Morphbank SCAMIT can use this workbook to populate the SCAMIT databaseSCAMIT can use this workbook to populate the SCAMIT database And the fields are...And the fields are...

24. New Workbook Fields

25. SCAMIT Workbook Fields

26. To the Workbook... To the Workbook...

27. Enter Names as they appear in MorphbankEnter Names as they appear in Morphbank Or, use Contributor, Submitter and Group IdsOr, use Contributor, Submitter and Group Ids Date to Publish in yyyy-mm-dd formatDate to Publish in yyyy-mm-dd format SCAMIT Workbook Sheet 3

28. + Morphbank Object + Morphbank Object –works with Sheet 1 SCAMIT Workbook Sheet 2

29. Morphbank objects color-coded: image, specimen, view, localityMorphbank objects color-coded: image, specimen, view, locality Provider uids stored for image, specimen, viewProvider uids stored for image, specimen, view –prefix + id Add more columnsAdd more columns External Links have 3 related columnsExternal Links have 3 related columns RelationshipsRelationships –One Image – One Specimen –Many Images – One Specimen > Requires Provider UIDs Help with fieldsHelp with fields –http://www.morphbank.net/About/Manual/customWorkbook.php http://www.morphbank.net/About/Manual/customWorkbook.php Help via emailHelp via email –mbadmin@scs.fsu.edu SCAMIT Workbook Sheet 1

30. Thanks! from Morphbank