Scratchpads Vincent S. Smith, Simon D. Rycroft, & Dave Roberts getting biodiversity on the web.

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Presentation transcript:

Scratchpads Vincent S. Smith, Simon D. Rycroft, & Dave Roberts getting biodiversity on the web

Scratchpads 1.Concept, hosting & config. 2.Applications & users 3.Functionality 4.Future directions - talk outline

Scratchpads - Concept 1. Your Data 2. Submitted via Web forms 3. Creates your Scratchpad

Scratchpads - Hosting & configuration Single virtual machine LAMP software setup Host Drupal CMS (multisite config.) Shared permissions, roles & sys. tables Shared modules Apache name based virtual hosts Separate site databases & content Auto. site creation via scripts Configuration Self content archival (citable) Daily backup (last 6 months) Archival & Backup

Scratchpads - Application process Biological focus Must agree to T&Cs CC license by-nc-sa Signup Requirements Name Scope Mission statement (Sub)domain name 3rd party API keys Signup Form

Scratchpads - Use / users Taxon (x13) Checklists (x4) Societies (x4) Administrative (x2) Regional (x2) e-Journals (x1) Site types* (26 total) Registered users (200) Total pages (40k) Page views (700k) Collective visits (46k) Usage Statistics* 1 June - 1 Sept. 07*

Scratchpads - Help screencasts Signup Overview Simple maps Forum Taxonomy Filestore Literature Images Custom data Administration Videos with Commentary And 14 more…

Username: test Password: password Sandbox Automatically resets every hour Scratchpads - Testdrive

Functionality - Taskguide

Functionality - Google Maps Geolocate points Point & Click Map Creation Presence/Absence Maps

Functionality - Forum & document management Standard forum & document management functions

Functionality - Classifications (basic features) Multiple classifications List terms Basic editing Classify any content View classified content

Functionality - Classifications (import) uBio ClassificationBank Excel File Import

Functionality - Classifications (advanced features*) Advanced Intuitive Editing PygmyBrowse Coming soon*

Functionality - Scholarly publications Manage bibliographies Edit references Import / export lists OpenURL (via BioGUID) OAI Protocol

Functionality - Images Bulk upload & annotation Extensive browse & search Rights control Web image labeling Two sets of RSS feeds

Functionality - Store & visualize Newick formatted phylogenies* Coming soon*

Functionality - Genes, DNA sequences, specimen lists, custom data Coming soon* *

Functionality - Administration Unlimited site users Template user roles Customize & control all content Organic groups for collaboration Built in logs & spam filtering OpenID single sign-on One click backup downloads* Coming soon*

3. Data warehouse / EDIT CDM Future Directions (Sharing module choices, development & scripts, developing the Scratchpads as a general science tool) (Possible data source, unlikely to be pursued until after first release of EOL in Feb. 08) (Warehouse feeding iSpecies2 as envisioned in / data source for EDIT CDM) Global Biodiversity Information Facility (GBIF) 1. Woods Hole Oceanographic Institute (WHOI) & 2. Encyclopedia of Life (EOL)

Acknowledgements Malcolm Scoble (NHM, Entomology) Chris Lyal (NHM, Entomology.) Rod Page (Univ. of Glasgow)

Questions?