The reason to go to this trouble is to enable Devonthink’s artificial intelligence. I’ve written about how I extract highlights and annotations into individual files along with their relevant references.
#NVALT 2018 PDF#
I use Papers for my PDF and bibliographic management. Highlights has greatly sped up the extraction of information from my reading.First a little background. I gave Highlights a second chance, and although not perfect, the app is slowly winning me over. I was too quick to judge the program Highlights. ***This workflow has been modified from here to the end-Please see Modification to Reading, Extracting And Storing Scholarly Information To Supercharge The Writing Process to see what I do instead.*** I find this workflow invaluable when writing scholarly information.
#NVALT 2018 FULL#
Queries within Devonthink simultaneously find annotations, chunks of text and full manuscripts related to my search. When I find an item in my database I want to include in my paper, clicking the link in the annotation takes me directly to the paper in this method, I'm able to take full advantage of the Devonthink AI. The new information is also transferred to Devonthink ToGo to use while writing on my iPad.Using the Artificial Intelligence of Devonthink. Since I’ve set up my Devonthink database to index this folder,the next time I launch Devonthink, the new information is catalogued and available for writing. I put the desktop PDF in the trash, replace the RFP keyword in Bookends with DTx to remind me I've extracted the paper. I move the folder from the Devonthink Inbox to my desktop and then use Launchbar to move file from my desktop to my annotations folder. The annotations are saved as individual files to my Devonthink Inbox. I also highlight the text of each table and figure.Once I'm done highlighting the entire paper, from within Highlights.app, I export my annotations to Devonthink from the Highlights.app menu. Within Highlights, I use yellow to mark up the entire document over the top of my previous annotations. When checked, this preference will append the color of the highlight in each note. I make sure the annotations color preference is checked in Highlights.app.
Clicking the link within any extracted file takes me directly back to the reference in Bookends.I then turn my attention to Highlights.app. Using use the text URL copied from Bookends to make a markdown link back to the Bookends Reference.When I export my annotations to Devonthink, the URL link will be appended to each file. I use Copy Hypertext Link:Copy as Text from Bookends, and then open the “Edit” Tab in Highlights. Uzsing this method, I can batch process multiple PDFs when I get to my Mac.When I'm ready to extract the information from the PDF into my Devonthink writing database, I export the PDF to my desktop and append the exported file’s name with FT (for fulltext).On my desktop, I open the file with Highlights. I have a Smart Folder set up in Bookends that finds the Keyword RFP. When I’m finished annotating, I add the keyword RFP (ready for processing) to the manuscript in the Bookend database. I use blue to highlight quotes I wish to use verbatim. On my first pass through an article, using Bookend's built-in tools, I highlight annotations and jot notes in green.
#NVALT 2018 PRO#
My current preference is reading PDFs on a 12.9" iPad Pro along with an Apple Pencil. Bookends outshines Papers in its built-in annotation tools as well as its seamless syncing between iOS and Mac. But more importantly Devonthink finds related content based on the context of my original query.After importing a manuscript into Bookends, the document becomes available on all my devices. Through its "see also" feature, Devonthink can identify information I’m looking for. In addition, after highlighting, I’ve been extracting the entire manuscripts in 1-4 paragraph pieces.The whole purpose of extracting annotations and full text from each manuscript is to gain granular access to the information I’ve read. I now use the combination of Bookends and Highlights.app to extract each of my annotations and notes as separate files.
I am now finding the majority of information through qxMD Read.My workflow for extraction of annotations differs a bit from when I was using Papers. Despite this change, my method of information gathering has changed little since I covered the topic, except for one major addition. Bookends has completely replaced Papers.app as my citation manager.
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