Using NLP to Support Dynamic Arrangement, Description, and Discovery of Born Digital Collections: The ArchExtract Experiment

By Mary W. Elings

This post is the eighth in our Spring 2016 series on processing digital materials.

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Many of us working with archival materials are looking for tools and methods to support arrangement, description, and discovery of electronic records and born digital collections, as well as large bodies of digitized text. Natural Language Processing (NLP), which uses algorithms and mathematical models to process natural language, offers a variety of potential solutions to support this work. Several efforts have investigated using NLP solutions for analyzing archival materials, including TOME (Interactive TOpic Model and MEtadata Visualization), Ed Summers’ Fondz, and Thomas Padilla’s Woese Collection work, among others, though none have resulted in a major tool for broader use.

One of these projects, ArchExtract, was carried out at UC Berkeley’s Bancroft Library in 2014-2015. ArchExtract sought to apply several NLP tools and methods to large digital text collections and build a web application that would package these largely command-line NLP tools into an interface that would make it easy for archivists and researchers to use.

The ArchExtract project focused on facilitating analysis of the content and, via that analysis, discovery by researchers. The development work was done by an intern from the UC Berkeley School of Information, Janine Heiser, who built a web application that implements several NLP tools, including Topic Modelling, Named Entity Recognition, and Keyword Extraction to explore and present large, text-based digital collections.

The ArchExtract application extracts topics, named entities (people, places, subjects, dates, etc.), and keywords from a given collection. The application automates, implements, and extends various natural language processing software tools, such as MALLET and the Stanford Core NLP toolkit, and provides a graphical user interface designed for non-technical users.

 

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ArchExtract Interface Showing Topic Model Results. Elings/Heiser, 2015.

In testing the application, we found the automated text analysis tools in ArchExtract were successful in identifying major topics, as well as names, dates, and places found in the text, and their frequency, thereby giving archivists an understanding of the scope and content of a collection as part of the arrangement and description process. We called this process “dynamic arrangement and description,” as materials can be re-arranged using different text processing settings so that archivists can look critically at the collection without changing the physical or virtual arrangement.

The topic models, in particular, surfaced documents that may have been related to a topic but did not contain a specific keyword or entity. The process was akin to the sort of serendipity a researcher might achieve when shelf reading in the analog world, wherein you might find what you seek without knowing it was there. And while topic modelling has been criticized for being inexact, it can be “immensely powerful for browsing and isolating results in thousands or millions of uncatalogued texts” (Schmidt, 2012). This, combined with the named entity and keyword extraction, can give archivists and researchers important data that could be used in describing and discovering material.

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ArchExtract Interface Showing Named Entity Recognition Results. Elings/Heiser, 2015.

As a demonstration project, ArchExtract was successful in achieving our goals. The code developed is documented and freely available on GitHub to anyone interested in how it was done or who might wish to take it further. We are very excited by the potential of these tools in dynamically arranging and describing large, text-based digital collections, but even more so by their application in discovery. We are particularly pleased that broad, open source projects like BitCurator and ePADD are taking this work forward and will be bringing NLP tools into environments that we can all take advantage of in processing and providing access to our born digital materials.

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Mary W. Elings is the Principal Archivist for Digital Collections and Head of the Digital Collections Unit of The Bancroft Library at the University of California, Berkeley. She is responsible for all aspects of the digital collections, including managing digital curation activities, the born digital archives program, web archiving, digital processing, mass digitization, finding aid publication and maintenance, metadata, archival information management and digital asset management, and digital initiatives. Her current work concentrates on issues surrounding born-digital materials, supporting digital humanities and digital social sciences, and research data management. Ms. Elings co-authored the article “Metadata for All: Descriptive Standards and Metadata Sharing across Libraries, Archives and Museums,” and wrote a primer on linked data for LAMs. She has taught as an adjunct professor in the School of Information Studies at Syracuse University, New York (2003-2009) and School of Library and Information Science, Catholic University, Washington, DC (2010-2014), and is a regular guest-lecturer in the John F. Kennedy University Museum Studies program (2010-present).

Recent Changes in How Stanford University Libraries is Documenting Born-Digital Processing

By Michael G. Olson

This post is the third in our Spring 2016 series on processing digital materials.

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Stanford University Libraries is in the process of changing how it documents its digital processing activities and records lab statistics. This is our third iteration of how we track our born-digital work in six years and is a collaborative effort between Digital Library Systems and Services, our Digital Archivist Peter Chan, and Glynn Edwards, who manages our Born-Digital Program and is the Director of the ePADD project.

Initially we documented our statistics using a library-hosted FileMaker Pro database. In this initial iteration we were focused on tracking media counts and media failure rates. After a single year of using the database we decided that we needed to modify the data structure and the data entry templates significantly. Our staff found the database too time consuming and cumbersome to modify.

We decided to simplify and replaced the database with a spreadsheet stored with our collection data. Our digital archivist and hourly lab employees were responsible for updating this spreadsheet when they had finished working with a collection. This was a simple solution that was easy to edit and update, and it worked well for four years until we realized we needed more data for our fiscal year-end reports. As our born-digital program has grown and matured, we discovered we were missing key data points that documented important processing decisions in our workflows. It was time to again improve how we documented our work.

BDFL_labstats_FY2015Q1-Q2_v2Stanford Statistics Spreadsheet version 2

For our brand new version of work tracking we have decided to continue to use a spreadsheet but have migrated our data to Google Drive to better facilitate updates and versioning of our documentation. New data points have been included to better track specific types of born-digital content like email. This new version also allows us to better document the processing lifecycle of our born-digital collections. In order to better do this we have created the following additional data points:

  • Number of email messages
  • Email in ePADD.stanford.edu
  • File count in media cart
  • File size on media cart (GB)
  • SearchWorks (materials discoverable / available in library catalog)
  • SpotLight Exhibit (a virtual exhibit)

BDFL_stats_v3Stanford Statistics Spreadsheet version 3

We anticipate that evolving library administrative needs, the continually changing nature of born-digital data, and new methodologies for processing these materials will make it necessary to again change how we document our work. Our solution is not perfect but is flexible enough to allow us to reimagine our documentation strategy in a few short years. If anyone is interested in learning more about what we are documenting and why, please do let us know, as we would be happy to provide further information and may learn something from our colleagues in the process.

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Michael G. Olson is the Service Manager for the Born-Digital / Forensics Labs at Stanford University Libraries. In this capacity he is responsible for working with library stakeholders to develop services for acquiring, preserving and accessing born-digital library materials. Michael holds a Masters in Philosophy in History and Computing from the University of Glasgow. He can be reached at mgolson [at] Stanford [dot] edu.

Clearing the digital backlog at the Thomas Fisher Rare Book Library

By Jess Whyte

This is the second post in our Spring 2016 series on processing digital materials.

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Tucked away in the manuscript collections at the Thomas Fisher Rare Book Library, there are disks. They’ve been quietly hiding out in folders and boxes for the last 30 years. As the University of Toronto Libraries develops its digital preservation policies and workflows, we identified these disks as an ideal starting point to test out some of our processes. The Fisher was the perfect place to start:

  • the collections are heterogeneous in terms of format, age, media and filesystems
  • the scope is manageable (we identified just under 2000 digital objects in the manuscript collections)
  • the content has relatively clear boundaries (we’re dealing with disks and drives, not relational databases, software or web archives)
  • the content is at risk

The Thomas Fisher Rare Book Library Digital Preservation Pilot Project was born. It’s purpose: to evaluate the extent of the content at risk and establish a baseline level of preservation on the content.

Identifying digital assets

The project started by identifying and listing all the known digital objects in the manuscript collections. I did this by batch searching all the .pdf finding aids from post-1960 with terms like “digital,” “electronic,” “disk,” —you get the idea. Once we knew how many items we were dealing with and where we could find them, we could begin.

Early days, testing and fails
When I first started, I optimistically thought I would just fire up BitCurator and everything would work.

whyte01

It didn’t, but that’s okay. All of the reasons we chose these collections in the first place (format, media, filesystem and age diversity) also posed a variety of challenges to our workflow for capture and analysis. There was also a question of scalability – could I really expect to create preservation copies of ~2000 disks along with accompanying metadata within a target 18-month window? By processing each object one-by-one in a graphical user interface? While working on the project part-time? No, I couldn’t. Something needed to change.

Our early iterations of the process went something like this:

  1. Use a Kryoflux and its corresponding software to take an image of the disk
  2. Mount the image in a tool like FTK Imager or HFSExplorer
  3. Export a list of the files in a somewhat consistent manner to serve as a manifest, metadata and de facto finding aid
  4. Bag it all up in Bagger.

This was slow, inconsistent, and not well-suited to the project timetable. I tried using fiwalk (included with BitCurator) to walk through a series of images and automatically generate manifests of their contents, but fiwalk does not support HFS and other, older filesystems. Considering 40% of our disks thus far were HFS (at this point, I was 100 disks in), fiwalk wasn’t going to save us. I could automate the process for 60% of the disks, but the remainder would still need to be handled individually–and I wouldn’t have those beautifully formatted DFXML (Digital Forensics XML) files to accompany them. I needed a fix.

Enter disktype and md5deep

I needed a way to a) mount a series of disk images, b) look inside, c) generate metadata on the file contents and d) produce a more human-readable manifest that could serve as a finding aid.

Ideally, the format of all that metadata would be consistent. Critically, the whole process would be as automated as possible.

This is where disktype and md5deep come in. I could use disktype to identify an image’s filesystem, mount it accordingly and then use md5deep to generate DFXML and .csv files. The first iteration of our script did just that, but md5deep doesn’t produce as much metadata as fiwalk. While I don’t have the skills to rewrite fiwalk, I do have the skills to write a simple bash script that routes disk images based on their filesystem to either md5deep or fiwalk. You can find that script here, and a visualization of how it works below:

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I could now turn this (collection of image files and corresponding imaging logs):

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into this (collection of image files, logs, DFXML files, and CSV manifests):

Whyte04

Or, to put it another way, I could now take one of these:

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And rapidly turn it into this ready-to-be-bagged package:

Whyte06

Challenges, Future Considerations and Questions

Are we going too fast?
Do we really want to do this quickly? What discoveries or insights will we miss by automating this process? There is value in slowing down and spending time with an artifact and learning from it. Opportunities to do this will likely come up thanks to outliers, but I still want to carve out some time to play around with how these images can be used and studied, individually and as a set.

Virus Checks:
We’re still investigating ways to run virus checks that are efficient and thorough, but not invasive (won’t modify the image in any way).  One possibility is to include the virus check in our bash script, but this will slow it down significantly and make quick passes through a collection of images impossible (during the early, testing phases of this pilot, this is critical). Another possibility is running virus checks before the images are bagged. This would let us run the virus checks overnight and then address any flagged images (so far, we’ve found viruses in ~3% of our disk images and most were boot-sector viruses). I’m curious to hear how others fit virus checks into their workflows, so please comment if you have suggestions or ideas.

Adding More Filesystem Recognition
Right now, the processing script only recognizes FAT and HFS filesystems and then routes them accordingly. So far, these are the only two filesystems that have come up in my work, but the plan is to add other filesystems to the script on an as-needed basis. In other words, if I happen to meet an Amiga disk on the road, I can add it then.

Access Copies:
This project is currently focused on creating preservation copies. For now, access requests are handled on an as-needed basis. This is definitely something that will require future work.

Error Checking:
Automating much of this process means we can complete the work with available resources, but it raises questions about error checking. If a human isn’t opening each image individually, poking around, maybe extracting a file or two, then how can we be sure of successful capture? That said, we do currently have some indicators: the Kryoflux log files, human monitoring of the imaging process (are there “bad” sectors? Is it worth taking a closer look?), and the DFXML and .csv manifest files (were they successfully created? Are there files in the image?). How are other archives handling automation and exception handling?

If you’d like to see our evolving workflow or follow along with our project timeline, you can do so here. Your feedback and comments are welcome.

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Jess Whyte is a Masters Student in the Faculty of Information at the University of Toronto. She holds a two-year digital preservation internship with the University of Toronto Libraries and also works as a Research Assistant with the Digital Curation Institute.  

Resources:

Gengenbach, M. (2012). The way we do it here”: Mapping digital forensics workflows in collecting institutions.”. Unpublished master’s thesis, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina.

Goldman, B. (2011). Bridging the gap: taking practical steps toward managing born-digital collections in manuscript repositories. RBM: A Journal of Rare Books, Manuscripts and Cultural Heritage, 12(1), 11-24

Prael, A., & Wickner, A. (2015). Getting to Know FRED: Introducing Workflows for Born-Digital Content.

Digital Processing at the Rockefeller Archive Center

By Bonnie Gordon

This is the first post in our Spring 2016 series on processing digital materials, exploring how archivists conceive of, implement, and track activities to arrange and describe digital materials in archival collections. If you are interested in contributing to bloggERS!, check out our guidelines for writers or contact us at ers.mailer.blog@gmail.com

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At the Rockefeller Archive Center, we’re working to get “digital processing” out of the hands of “digital” archivists and into the realm of “regular” archivists. We are using “digital processing” to mean description, arrangement, and initial preservation of born digital archival content stored on removable storage media. Our definition will likely expand over time, as we start to receive more born digital materials via network transfer and fewer acquisitions of floppy disks and CDs.

The vast majority of our born digital materials are on removable storage media and currently inaccessible to our researchers, donors, and staff. We have content on over 3,000 digital storage media items, which are rapidly deteriorating. Our backlog of digital media items includes over 2,500 optical disks, almost 200 3.5″ floppy disks, and almost 100 5.25″ floppy disks. There are also a handful of USB flash drives, hard drives, and older and unusual media (Bernoulli disks, Sy-Quest cartridges, 8″ floppy disks). This is a lot of work for one digital archivist! Having multiple “regular” archivists process these materials distributes the work, which means we can get through the backlog much more quickly. Additionally, integrating digital processing into regular processing work will prevent a future backlog from being created.

In order to help our processing archivists establish and enhance intellectual control of our born digital holdings, I’m working to provide them with the tools, workflows, and competencies needed to process digital materials.  Over the next several months, a core group of processing archivists will be trained and provided with documentation on digital media inventorying, digital forensics, and other born digital workflows. After training, archivists will be able to use the skills they gained in their “normal” processing projects. The core group of archivists trained on dealing with born digital materials will then be able to train other archivists. This will help digital processing be perceived as just another aspect of “regular” processing. Additionally, providing good workflow documentation gives our processing archivists the tools and competencies to do their jobs.

Streamlining our digital processing workflows is also a really important part of this. One step in this direction is to create a digital media inventory and disk imaging log that will be able to “talk” to our collections management system (ArchivesSpace). We currently have an inventory and imaging log, but they’re in a Microsoft Access database, which has a number of limitations, one of the primary ones being that it can’t integrate with our other systems. Integrating with ArchivesSpace reduces duplicate data entry, inconsistent data, and further integrates digital processing into our “regular” processing work.

The RAC’s processing archivists establish and enhance intellectual and physical control of our archival holdings, regardless of format, in order to facilitate user access. By fully integrating digital processing into “normal” processing activities, we will be able to preserve and provide access to unique born digital content stored on obsolete and decaying media.

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Bonnie Gordon is an Assistant Digital Archivist at the Rockefeller Archive Center, where she works primarily with born digital materials and digital preservation workflows. She received her M.A. in Archives and Public History, with a concentration in Archives, from New York University.

Request for contributors to a new series on bloggERS!

The editors at bloggERS! HQ are looking for authors to write for a new series of posts, and we’d like to hear from YOU.

The topic of the next series on the Electronic Records Section blog is processing digital materials: what it is, how practitioners are doing it, and how they are measuring their work.

How are you processing digital materials? And how do you define “digital processing,” anyway?

The what and how of digital processing are dependent upon a variety of factors: available resources and technical expertise, the tools, systems, and infrastructure that are particular to an organization, and the nature of the digital materials themselves.

  • What tools are you using, and how do they integrate with your physical arrangement and description practices?
  • Are you leveraging automation, topic modeling, text analysis, named entity recognition, or other technologies in your processing workflows?
  • How are you working with different types of digital content, such as email, websites, documents, and digital images?
  • What are the biggest challenges that you have encountered? What is your biggest recent digital processing success? What would you like to be able to do, and what are your blockers?

If you have answers to any of these questions, or you are thinking of other questions we haven’t asked here, then consider writing a post to share your experiences (good or bad) processing digital materials.

Quantifying and tracking digital processing activities

Many organizations maintain processing metrics, such as hours per linear foot. In processing digital materials, the level of effort may be more dependent upon the type and format of the materials than their extent.

  • What metrics make sense for quantifying digital processing activities?  
  • How does your organization track the pace and efficiency of digital processing activities?
  • Have you explored any alternative ways of documenting digital processing activity?

If you have been working to answer any of these questions for yourself or your institution, we’d like to hear from you!

Writing for bloggERS!

  • Posts should be between 200-600 words in length
  • Posts can take many forms: instructional guides, in-depth tool exploration, surveys, dialogues, point-counterpoint debates are all welcome!
  • Write posts for a wide audience: anyone who stewards, studies, or has an interest in digital archives and electronic records, both within and beyond SAA
  • Align with other editorial guidelines as outlined in the bloggERS! guidelines for writers.

Posts for this series will start in early April, so let us know ASAP if you are interested in contributing by sending an email to ers.mailer.blog@gmail.com!