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Logseq was captured by VC a long time ago. They switched from open files to a database, their synching product is closed source (not selfhostable), and they have built-in telemetry.
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I don't think I've updated my Logseq since 2022. As far as that is concerned, it's Markdown files that I can sync with an open-source tool like Syncthing-Fork.
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Obsidian is at least storing in markdown. Although some plugins probably add additional formatting that isn't standard.
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My use case isn't likely to be a personal knowledge base, I've just never had any traction on that sort of thing beyond a blog/microblog. I'm wanting to use something specifically for organizing the building of a shop/ADU: todo lists, pinterest-like inspiration boards, costing spreadsheets...
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https://anytype.io/ is the open-source CC of Notion AFAIK.
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Anytype is a well-made product, but its data format is somewhat opaque and like Notion suffers from significant complexity. I switched to Obsidian last year, which while proprietary at least gives me the option to move my data somewhere else if I should need to. Anytype doesn't make it easy to get your data off its platform.
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it's source-available, not open source

https://isitreallyfoss.com/projects/anytype/

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You don't lose anything from the proprietary nature of Obsidian because it's just markdown files all the way down.
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Yeah to clarify, I mean Notion was proprietary. Obsidian I would call borderline because as you mentioned, the markdown file storage format.
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For the sake of staying a computer nerd I decided to put all my notes in a private GitHub repo with help of a local 5b Gemma4 LLM. Is working extremely well. It doesn't matter in what format i type. I Use opencode for entering new notes.
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Logseq isn't abandonware - they're in the process of rebuilding the app from the ground up to be database-driven, rather than house-brand Markdown as the source of truth and a database constructed from the files afterwards.

I'm not saying it's the most likely project to survive, but they've been working in quiet mode for a good while now.

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