0
Specimen collections
Databases
Publications
Observations
‘Gray’ literature
Index cards
Field notebooks
Taxonomic Impediment
Technology Library Science
Biodiversity Heritage Library
BHL “classic” or US/UK: 15 institutions …Formed in
2006, 13 members and 2 affiliates
15 Members
•Academy of Natural Scienc...
BHL “classic” or US/UK: Key Organizational Points
• BHL is not a legal entity; fiduciary
and legal agreements are generall...
BHL Institutional Council | Woods Hole | May 2013
Secretariat and Technical Staff
August 2011Program Director
Program Manager
Collections Coordinator
Technical Director
Pro...
What is Biodiversity Content?
Collection Management Cycle
Deduplication
Digitization
Users
Curation
Selection
Selection
High-yield taxonomic materials
Unique & rare materials
Permissions titles
User requested titles & gap-fills
Disc...
Increase agreements
with publishers of in
copyright materials
US Titles: 206
UK Titles: 67
TOTAL TITLES: 273
US Licensors:...
Deduplication
• We try to avoid duplication where possible
• Tools
• Serials = Scanlist
• Monographs = Monographic deduper...
BHL US/UK Principles: Digitization
Mass-digitization scanning operation
Scan books, cover-to-cover
To the best we can, we ...
BHL US/UK Principles: Digitization
Most BHL US/UK libraries scan directly through the
Internet Archive
We pay the Internet...
BHL US/UK Principles: Metadata
Our baseline standard is MARC
We derive the metadata that displays on the BHL
website from ...
Digitization workflow
1. Titles vs. Items vs. Segments
2. Metadata we need:
• MARC for book and journal titles
• Volume in...
Digitization Workflow
Insert
Smithsonian
Macaw software
here
Internet Archive Scanning
Northeast Regional
Scanning Facility
(Boston)
New Jersey Facility
Natural History Museum,
London...
Scanning Operations: Macaw
41,359,223 pages
117,368 items
62,259 titles
29 August 2013
Content Growth
2007-2013
… and now including segments
92,356 “segments”
New Content Types
Field Books and other archival materials Stand along or linked illustrations
Relevant information in Spanish
about Mexican biodiversity
BHL contains much in Spanish or about Mexico,
but it is not cle...
Secretariat
Technical
Member operations
BHL Expenditures
2012 BHL Member In-kind Staff FTE & Costs (incomplete)
14.193 FTE from the 14 member institutions
$1,239,300 staff and oth...
2012 BHL Central Support
7.055 FTE 4.43 FTE
Technical
2.625 FTE
Secretariat
Staff
$316,053
Other
$ 78,477
Total
$394,531
S...
2012 Smithsonian Libraries BHL Staff
Staff Cost: $323,488
» 4.342 FTE
Direct Staff Contributions Total Cost FTE
Administra...
233 countriesUsers in 233 Countries
User Statistics: 2007 - 2013
Visitors: 3,628,088
Page Views: 17,604,395
New vs. Returning: 50.06% vs. 49.04%
2007
2013
146...
TheMachineIsUs/ingUs
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I am thrilled with what I have been able to find
re: archaic mammary embryology some of
which I had been hoping to find at...
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What an absolutely wonderful site.
It is a treasure trove of information.
Thank yo...
JSTOR Global Plant Initiative
Panama City, Panama, Janua
Facebook
Total Page Likes: 4,384
Twitter @ BioDivLibrary
Total Followers: 2,369
Pinterest
2,373 images & 16 collections
Bl...
3.8 million total views | 63,000 images (13 Feb 13)
Firewall
Images (JP2)
PDF
Coordinate-based OCR
XML metadata
BHL Architecture: Window Seat Ed.
BHL DB
Internet Archive
Stor...
Digitizing Biodiversity
Literature
(Technical content)
William Ulate
29 August 2013
Hardware & Software
Hardware
Scribe station
Off-the-shelf scanners or good-quality digital cameras
Software
Wonderfetch ->...
Standards and formats to consider
The simplest way to contribute a text item to IA is currently as a single pdf file. IA
c...
Standards and formats to consider
BHL recommends following, in part, the DLF's "Benchmark for
Faithful Digital Reproductio...
Standards and formats to consider
Currently, BHL data can be downloaded as MODS,
EndNote and BibTex. See our wiki page wit...
Standards and formats to consider
For the future, we are looking at serving OLEF as
an envelope format to share informatio...
Metadata generation and
indexing strategy
Each item to be uploaded needs a unique
identifier within our central repository...
Metadata generation and
indexing strategy
Scanned material (jp2.zip) and basic title-level metadata content
(marc.xml), it...
Metadata generation and
indexing strategy
META.xml: The item level information (even redundant with
the title-level inform...
Metadata generation and
indexing strategy
CREATOR: A “Creator” is defined as a person or
company responsible for the creat...
Metadata generation and
indexing strategy
Internet Archive runs the OCR process and
generates “derivative files” that incl...
Metadata generation and
indexing strategy
The metadata from new items included in the BHL
collection is included in the da...
Online Platform
Capture System
Scribe machines
Macaw
Publication
BHL Portal
BookViewer
PDF Generator
Online Platform
Publication
BHL API
(biodivlib.wikispaces.com/Developer+Tools+and+API)
The BHL Application Programming Int...
Online Platform
Publication
Data Exports (biodivlib.wikispaces.com/Data+Exports)
Online Platform
Management
BHL Admin Dashboard
Admin Functions
(Alert Message, Image Server, Collections, Institutions,
La...
Online Platform
Management
BHL Admin Dashboard
PDF Generation Statistics (Generated: 174,162)
Internet Archive Harvesting ...
Online Platform
Management
Monographic Deduping Tool
The MBLWHOI Library has been working on a tool that
assists with de-d...
Online Platform
Management
Monographic Deduping Tool
In addition, there is a process also in place that allows for
materia...
Online Platform
Management
Serials Bid List
It is a catalogue that allows users to browse and search
Serials titles held b...
Trish Rose-Sandler, Missouri Botanical GardenDLF Forum 2012 Denver CO Art of Life project
Scanning Locally, Collaborating Globally
 6 global nodes: By country, region, language
 Each node is independent and sel...
Global BHL Steering Committee
August 2011 Vice Chair SecretaryChair
Looking Forward
In any well-appointed
Natural History Library
there should be found
every book and every
edition of every ...
Thank you!
And thanks to Bianca Crowley
for the workflow slides
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library
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Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library

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Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library. Martin R. Kalfatovic and William Ulate. CONABIO Teleconference. 29 August 2013.

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Transcript of "Digitalización de literatura de Biodiversidad: an Overview of the Biodiversity Heritage Library"

  1. 1. Specimen collections Databases Publications Observations ‘Gray’ literature Index cards Field notebooks Taxonomic Impediment
  2. 2. Technology Library Science Biodiversity Heritage Library
  3. 3. BHL “classic” or US/UK: 15 institutions …Formed in 2006, 13 members and 2 affiliates 15 Members •Academy of Natural Sciences Library and Archives •American Museum of Natural History Library •California Academy of Sciences Library •Cornell University Library •The Field Museum Library •Harvard University Botany Libraries •Ernst Mayr Library of the Museum of Comparative Zoology •Library of Congress •Marine Biological Laboratory and Woods Hole Oceanographic Institution Library •Missouri Botanical Garden Library •Natural History Museum, London, Library & Archives •The New York Botanical Garden •Royal Botanic Garden, Kew, Library & Archives •Smithsonian Institution Libraries •United States Geological Survey Libraries
  4. 4. BHL “classic” or US/UK: Key Organizational Points • BHL is not a legal entity; fiduciary and legal agreements are generally delegated to individual members • Membership is governed my a Memorandum of Understanding signed by all members • Two levels of membership (as of 2013): • Member (voting and administrative input); annual dues of $10,000 USD • Affiliate (provide content or other services to BHL; no voting or input into overall BHL direction) • BHL Secretariat (Administrative component), housed at the Smithsonian Libraries • BHL Technical Team (housed at Missouri Botanical Garden) • BHL Executive Committee (elected by Members): Chair, Vice-Chair and Secretary
  5. 5. BHL Institutional Council | Woods Hole | May 2013
  6. 6. Secretariat and Technical Staff August 2011Program Director Program Manager Collections Coordinator Technical Director Programmer Data Analyst
  7. 7. What is Biodiversity Content?
  8. 8. Collection Management Cycle Deduplication Digitization Users Curation Selection
  9. 9. Selection High-yield taxonomic materials Unique & rare materials Permissions titles User requested titles & gap-fills Discipline specific subject matter Non-BHL member materials ingested from the Internet Archive ACTIVE /HIGH PRIORITY PASSIVE /LOW PRIORITY
  10. 10. Increase agreements with publishers of in copyright materials US Titles: 206 UK Titles: 67 TOTAL TITLES: 273 US Licensors: 85 UK Licensors: 40 TOTAL LICENSORS: 125
  11. 11. Deduplication • We try to avoid duplication where possible • Tools • Serials = Scanlist • Monographs = Monographic deduper • Check the BHL before you send for scanning • We do our best but duplication happens • Post-digitization, we merge titles as necessary
  12. 12. BHL US/UK Principles: Digitization Mass-digitization scanning operation Scan books, cover-to-cover To the best we can, we seek to provide an exact digital copy of the original physical object We are experimenting with field note books Infrastructure supports book-like objects We do not (yet) have maps, art-works, photographs Workflow designed around scanning physical books We are working on solutions to incorporating born- digital materials
  13. 13. BHL US/UK Principles: Digitization Most BHL US/UK libraries scan directly through the Internet Archive We pay the Internet Archive to provide us with full digitization services Each BHL US/UK member library has its own workflow: Sending the books from our shelves And the bibliographic metadata from our library catalogs To the digitization station And returning the books back to our shelves
  14. 14. BHL US/UK Principles: Metadata Our baseline standard is MARC We derive the metadata that displays on the BHL website from the MARC records We aggregate the bibliographic records from each of our library catalogs into the BHL database AS IS We edit the metadata displayed on the BHL website manually as necessary BHL Digitization Specifications documentation currently being updated
  15. 15. Digitization workflow 1. Titles vs. Items vs. Segments 2. Metadata we need: • MARC for book and journal titles • Volume information • Page data BHL Term Titles Items Segments Library Term Book or Journal Titles Volume, Piece Articles, Book chapters, Meaning Conceptual unit Object Section of consecutive pages
  16. 16. Digitization Workflow Insert Smithsonian Macaw software here
  17. 17. Internet Archive Scanning Northeast Regional Scanning Facility (Boston) New Jersey Facility Natural History Museum, London Fedscan (Library of Congress) Internet Archive (San Francisco) Smithsonian Libraries Missouri Botanical Garden (Non-Scribe operation)
  18. 18. Scanning Operations: Macaw
  19. 19. 41,359,223 pages 117,368 items 62,259 titles 29 August 2013 Content Growth 2007-2013
  20. 20. … and now including segments 92,356 “segments”
  21. 21. New Content Types Field Books and other archival materials Stand along or linked illustrations
  22. 22. Relevant information in Spanish about Mexican biodiversity BHL contains much in Spanish or about Mexico, but it is not clearly broken out Ensayo ornitologico de los troquilideos ó colibries de Mexico. Mexico, ,I Escalante,1875 The Orchidaceae of Mexico and Guatemala. London: Ridgway, [1837-1843] A selection of the birds of Brazil and Mexico: the drawings London: H.G. Bohn,1841
  23. 23. Secretariat Technical Member operations BHL Expenditures
  24. 24. 2012 BHL Member In-kind Staff FTE & Costs (incomplete) 14.193 FTE from the 14 member institutions $1,239,300 staff and other costs (does not include Secretariat or Technical staff)
  25. 25. 2012 BHL Central Support 7.055 FTE 4.43 FTE Technical 2.625 FTE Secretariat Staff $316,053 Other $ 78,477 Total $394,531 Staff $472,529 Other $ 22,615 Total $495,144
  26. 26. 2012 Smithsonian Libraries BHL Staff Staff Cost: $323,488 » 4.342 FTE Direct Staff Contributions Total Cost FTE Administration $68,650.33 0.432 Metadata $63,307.05 0.46 Collections Support $53,947.33 1.05 Database/Systems $22,197.55 0.23 Conservation $8,799.54 0.12 Scanning Preparation $42,395.70 0.85 Direct Scanning $50,350.60 1 Quality Control $13,840.56 0.2 Interns 0 Unpaid Volunteers 0
  27. 27. 233 countriesUsers in 233 Countries
  28. 28. User Statistics: 2007 - 2013 Visitors: 3,628,088 Page Views: 17,604,395 New vs. Returning: 50.06% vs. 49.04% 2007 2013 146,798 visitors | November 2012
  29. 29. TheMachineIsUs/ingUs <Response xmlns:xsi="http://www.w3.org/2001/XMLSchema- instance" xmlns:xsd="http://www.w3.org/2001/XMLSchema"> <Status>ok</Status> <Result> <Item> <ItemID>16800</ItemID> <Volume/> <Contributor>MBLWHOI Library</Contributor> <Sponsor>MBLWHOI Library</Sponsor> <Language>English</Language> <LicenseUrl/> <Rights/> <DueDiligence/> <CopyrightStatus/> <CopyrightRegion/> </Item>
  30. 30. I am thrilled with what I have been able to find re: archaic mammary embryology some of which I had been hoping to find at the National Library of Medicine, and to get it through your program was a huge advantage. Last night I believe I requested and received 11 PDFs, all of which are essential to a review paper* I am completing. Olav T. Oftedal PhD Smithsonian Environmental Research Center * “Evo-Devo of the Mammary Gland” by Oftedal, et al. Journal of Mammary Gland Biology and Neoplasia (May 2013)
  31. 31. “ T h a n k y o u m u c h f o r y o u r What an absolutely wonderful site. It is a treasure trove of information. Thank you! May I compliment you on this splendid service? The Library's invaluable for my work on seasonal variability of climate and vector-borne disease in British India, 1875-1940. I really appreciate your work. The Biodiversity Heritage Library is an excellent resource that regularly helps my assistant and I obtain original descriptions for plants .... I feel so privileged to be working in a day in age when such resources are so readily available and easy to obtain.
  32. 32. JSTOR Global Plant Initiative Panama City, Panama, Janua
  33. 33. Facebook Total Page Likes: 4,384 Twitter @ BioDivLibrary Total Followers: 2,369 Pinterest 2,373 images & 16 collections Blog Total Visits: 9,096 (2Q13) BHL Social Media February 2013
  34. 34. 3.8 million total views | 63,000 images (13 Feb 13)
  35. 35. Firewall Images (JP2) PDF Coordinate-based OCR XML metadata BHL Architecture: Window Seat Ed. BHL DB Internet Archive Storage Logic APIs UI Data Exports Access Data Transform Utilities Geocoding Name Finding
  36. 36. Digitizing Biodiversity Literature (Technical content) William Ulate 29 August 2013
  37. 37. Hardware & Software Hardware Scribe station Off-the-shelf scanners or good-quality digital cameras Software Wonderfetch -> Partner Meta App (when using Scribe machines) Macaw Uploading directly to Internet Archive (for example: MBG’s Botanicus)
  38. 38. Standards and formats to consider The simplest way to contribute a text item to IA is currently as a single pdf file. IA creates a second pdf with a text layer, if none exist. Items can be submitted as a stack of image files, one image per page. The files can be in JPEG2000, JPG, or TIFF format, but with strict requirements for how the files in an image stack are to be named, and the stack needs to be packed into a single .zip or .tar file before submission. When IA (Archive.org) scans a book for a Contributing Library, they use the custom-engineered "Scribe" workstation, but for many materials, adequate images can be made with off-the-shelf scanners or good-quality digital cameras. For best results, it is recommended to use the highest resolution your device is capable of. Most images IA processes were produced at a resolution of 300- 600 ppi.
  39. 39. Standards and formats to consider BHL recommends following, in part, the DLF's "Benchmark for Faithful Digital Reproductions of Monographs and Serials" (available online at http://www.diglib.org/standards/bmarkfin.htm). Bitonal: 600 dpi, 1-bit or bitonal TIFF images Grayscale: 300 dpi, 8-bit grayscale uncompressed TIFF, or lossless compressed image (e.g. LZW, JPEG2000 [*.jp2]). Color: 300 dpi, 24-bit color uncompressed TIFF, or lossless compressed images (e.g. LZW, JPEG2000 [*.jp2]). NOTE: the above specifications are the preferred ones. BHL will, however, accept lossy files. In the case of JPEG2000, files with a compression level of 85% are acceptable.
  40. 40. Standards and formats to consider Currently, BHL data can be downloaded as MODS, EndNote and BibTex. See our wiki page with more information: http://biodivlib.wikispaces.com/Data+Exports#x--MODS Title metadata as well as pagination, descriptive and page order (structural) metadata is being copied into METS files in the <biodiveristy> collection at IA. The purpose of these METS files is to accommodate the need of our pagination data. These METS files are pagination specific and they do not have the item/volume information included. If bibliographic metadata for BHL content was required, it should be found in the MODS files on the Data Exports page.
  41. 41. Standards and formats to consider For the future, we are looking at serving OLEF as an envelope format to share information with other BHL Nodes. See http://www.bhle.eu/bhl-schema/v0.3/ and http://www.slideshare.net/HeimoRainer/bhleuropemet adataharmonisationtdwg20111018kollerwhrainer/6 )
  42. 42. Metadata generation and indexing strategy Each item to be uploaded needs a unique identifier within our central repository, currently Internet Archive (archive.org) and a folder with such name is created to hold the uploaded and generated (derivative) files. Within BHL we record metadata at 3 levels of bibliographic granularity – Title, Item & Page – as well as metadata for the Creator(s) of the title.
  43. 43. Metadata generation and indexing strategy Scanned material (jp2.zip) and basic title-level metadata content (marc.xml), item-level metadata (meta.xml) and page-level metadata (scandata.xml) are uploaded to Internet Archive (IA), in the ‘biodiversity’ collection. JP2.zip: The compressed JP2 images (Compression Quality 15) that IA will use for delivering pages to the Read Online feature following a very specific naming convention for the filenames: Master images files named with local library identifier + 4-digit sequence number (with no gaps). MARC.xml: The MARC record for the title from the library catalog in MARCXML format Title, *Abbreviation, *Creator, Description, Publisher, Start Date Published, End Date Published, Local Library Identifier, *OCLC Number, *ISSN, *ISBN, *Call Number, *Subject, *Language, Date Created, Date Last Modified, *Foreign Keys
  44. 44. Metadata generation and indexing strategy META.xml: The item level information (even redundant with the title-level information) including the title, author, publisher, copyright information, digitizing sponsor, date published, type of item, and who originally uploaded it. IA may also update this XML file with information as it processes the pages of the item. Barcode, Sequence, Local Library Identifier, +Start Volume, End Volume, +Start Date, End Date, *Language, Scanning Institution, *Scanning Contributor, *Scanning Sponsor, Date Created, Date Last Modified SCANDATA.xml: An XML file (scandata.xml) recording information about each page image (handSide, cropBox, original width & height, etc. ) FileName, Sequence, *Page number, *Page Type, Year, Volume, IssuePrefix, Issue, Date Created, Date Last Modified
  45. 45. Metadata generation and indexing strategy CREATOR: A “Creator” is defined as a person or company responsible for the creation of the Title. Name, *Role, Date of Birth, Date of Death, Biography A detailed description of the contents of each one of these files and the whole process of Uploading content to IA is available at: http://biodivlib.wikispaces.com/Upload
  46. 46. Metadata generation and indexing strategy Internet Archive runs the OCR process and generates “derivative files” that include: The resulting files of the OCR process with ABBYY FineReader (djvu, djvu.txt, djvu.xml, abby.gz) A 100x152 pixel GIF with a looping, animated thumbnail of the first 20 pages of a book. The presentation version on BHL in PDF format. The MARC record in binary and XML formats. And others ( for a more detailed description you can see http://biodivlib.wikispaces.com/Download+All+File+Type s+and+Descriptions )
  47. 47. Metadata generation and indexing strategy The metadata from new items included in the BHL collection is included in the database and indexed to be used in searches through the Portal and API services. Periodically, the OCR pages are ran through taxonomic names services to mine for new taxa names like TaxonFinder (ubio.org) or GNRDS (Global Names resolution tools and services: resolver.globalnames.org) soon. Taxa names are added to the database and written back into Internet Archive (names.xml)
  48. 48. Online Platform Capture System Scribe machines Macaw Publication BHL Portal BookViewer PDF Generator
  49. 49. Online Platform Publication BHL API (biodivlib.wikispaces.com/Developer+Tools+and+API) The BHL Application Programming Interface (API) is a set of REST-like web services that can be invoked via HTTP queries (GET/POST requests) or SOAP. Responses can be received in one of three formats: JSON, XML, or XML wrapped in a SOAP envelope. We are currently developing a new API v3, closer to a RESTful design than previous versions, using resource-centric URLs (where possible) and GET/PUT/POST/DELETE verbs.
  50. 50. Online Platform Publication Data Exports (biodivlib.wikispaces.com/Data+Exports)
  51. 51. Online Platform Management BHL Admin Dashboard Admin Functions (Alert Message, Image Server, Collections, Institutions, Languages, Page Types, PDF Requests, Segment Types) Library Functions (Titles/Items/Segments /Pagination/Authors) Science Functions (Names (Taxa) on a Page) Library Statistics (Titles/Items/Pages/Names/Segments/Items with Segments, Names, Pages with Names) Growth Statistics (Titles/Items/Pages/Names/Segments new this Month/Year)
  52. 52. Online Platform Management BHL Admin Dashboard PDF Generation Statistics (Generated: 174,162) Internet Archive Harvesting Statistics (Complete: 119,125 items) BioStor Harvest Statistics (Published: 11,126 as of Aug. 29, 2013) DOI Assignment Statistics (DOI Approved: 57,338 as of Aug 29, 2013) Web Traffic Statistics (API v2, OpenURL) Reports (Item Pagination, Title Import History, Character Encoding Problems, DOIs by Institution, Monographic Contributions, Items by Contributor)
  53. 53. Online Platform Management Monographic Deduping Tool The MBLWHOI Library has been working on a tool that assists with de-duplicating the monographs that BHL members are sending to IA for scanning. The application is ready for use and it’s entirely web-based, requiring no client or user configuration. The monographic deduper acts as a master database that contains records for all of the monographs that any BHL partner institution has scanned.
  54. 54. Online Platform Management Monographic Deduping Tool In addition, there is a process also in place that allows for material ingested from the Internet Archive, but not contributed by a BHLpartner institution, to be added to the deduper database. Ultimately, the Monographic deduper database should be seen as living record of accountability that communicates to staff collaborating in the BHL network, a partner’s promise to digitize a particular monographic title.
  55. 55. Online Platform Management Serials Bid List It is a catalogue that allows users to browse and search Serials titles held by BHL member institutions using advanced filtering.
  56. 56. Trish Rose-Sandler, Missouri Botanical GardenDLF Forum 2012 Denver CO Art of Life project
  57. 57. Scanning Locally, Collaborating Globally  6 global nodes: By country, region, language  Each node is independent and self-organized, but work under a set of common principles  Share content as much as possible  Node leaders form a Global Coordinating Committee  Goal is to share a common portal where possible  Goal is to develop multi-lingual portal
  58. 58. Global BHL Steering Committee August 2011 Vice Chair SecretaryChair
  59. 59. Looking Forward In any well-appointed Natural History Library there should be found every book and every edition of every book dealing in the remotest way with the subjects concerned. Charles Davies Sherborn Epilogue to Index Animalium, March 1922
  60. 60. Thank you! And thanks to Bianca Crowley for the workflow slides
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