Story

I read a lot of research papers for work. My workflow evolved around an ever-growing inbox of bookmarked papers from arXiv et al. Great for exploration, but hard to keep track of what I read.

Distillate bridges the tools I already use: Zotero (literature management), reMarkable (reader + highlighter), and Obsidian (notes). It automates the whole pipeline:

$ distillate

save to Zotero ──> auto-syncs to reMarkable

                        │

         read & highlight on tablet
         just move to Read/ when done

                        │

                        V

         auto-saves notes + highlights

- Parses .rm files using rmscene to extract highlighted text (GlyphRange items)

- Searches for that text in the original PDF using PyMuPDF and adds highlight annotations

- Enriches metadata from Semantic Scholar (publication date, venue, citations)

- Creates a structured markdown note with metadata, highlights grouped by page, and the annotated PDF (I keep mine in an Obsidian vault)

The core workflow just needs Zotero and a reMarkable — no paid APIs, no cloud backend, your notes stay on your machine. Optional extras if you plug them in:

- AI summaries via Claude (one-liner + key learnings from your highlights)

- Daily reading suggestions from your queue

- Weekly email digest via Resend

- Obsidian Bases database for tracking your reading

Stack: rmapi for reMarkable Cloud, rmscene for .rm parsing, PyMuPDF for PDF annotation. Python 3.10+, pip installable.

The trickiest part was highlight extraction: reMarkable stores highlighted text as GlyphRange items in a scene tree, and matching that text back to positions in the original PDF required fuzzy search with OCR cleanup, plus special merging logic for e.g. cross-page highlights. Happy to say it works well ~99% of the time now.

Install: pip install distillate && distillate --init

Code: https://github.com/rlacombe/distillate

Site: https://distillate.dev

I built this for myself but would love feedback, especially from other reMarkable + Zotero users. What's missing from your workflow? What else should I add?