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Title: Functional Spec for the Exocortex
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Tags: specs
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kExocortex is a tool for capturing and retaining knowledge, making it
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searchable.
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This is the initial top-level draft to sort out the high-level vision.
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## Summary
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The more you learn, the harder it is to recall specific things. Fortunately,
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computers are generally pretty good at remembering things. kExocortex is
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my attempt at building a knowledge graph for long-term memory.
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In addition to having functionality like notetaking systems like
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[Dendron](https://dendron.so), I'd like to keep track of what I call artifacts.
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An artifact is a source of some knowledge; it might be a PDF copy of a book, an
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image, or a URL.
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In a perfect world, I would have a local copy of everything with a remote backup.
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The remote backup lets me restore the exocortex in the event of data loss.
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## Usage sketches
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### Research mode
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If I am researching a topic, I have a top-level node that contains all the
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research I'm working on. I can link artifacts to a note, including URLs. One of
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the reasons it makes sense to attach a URL to a document is that I can reuse
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them, as well as go back and search URLs based on tags or categories. It would
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make sense to tag any artifacts with relevant tags from the note once it is saved.
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For example, let's say that I am research graphing databases. In Dendron, this
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note lives under `comp.database.graph`. I might find this O'Reilly book on
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[Neo4J](https://go.neo4j.com/rs/710-RRC-335/images/Neo4j_Graph_Algorithms.pdf)
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that discusses graph algorithms. I might link it here, and I might link it
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under a Neo4J-specific node. I would store the PDF in an artifact repository,
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adding relevant tags (such as "graph-database", "neo4j", "oreilly") and
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categorize it under books, PDFs, comp/database/graph/neo4j.
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Going forward, if I want to revisit the book, I don't have to find it online
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again. It's easily accessible from the artifact repository.
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The user interface for the knowledge graph should show a list of associated
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artifacts.
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Nodes are also timestamped; I am leaning towards keep track of every time a
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page was edited (but probably not the edits). If I know I was researching
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graph databases last week, and I log the URLs I was reading as artifacts,
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I have a better history of what I was reading.
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### Reading from a mobile device
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Sometimes I'm on my iPad or phone, and I want to save the link I'm reading. I
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should be able to stash documents, URLs, etc, in the artifact repository. This
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implies a remote endpoint that I can enter a URL and a tag, and have that
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entered into the artifact repository later.
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### Cataloging artifacts
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If I've entered a bunch of artifacts, I should be able to see a list of ones
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that need categorizing or that aren't attached to a node.
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### Autotagging
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The interface should search the text of a note to identify any tags. This
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brings up an important feature: notes consist of cells, and each cell has a
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type. The primary use case is to support markdown formatting and code blocks,
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while not touching the code blocks during autotagging. For example,
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```
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---
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node: today.2022.02.21
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---
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I figured out how to get Cayley running in production.
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\```
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cayleyd --some flag --other flag
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\```
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```
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The exocortex would see Cayley, identify that as a node, and add the tags for
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that node to this one. It might see production and add that as a tag, e.g. for
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ops-related stuff.
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### Fast capture
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I should be able to enter a quick note, which would go under a daily node tree.
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Something like `quick.2022-02-27.1534`.
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This would get autotagged. Quick notes might also get a metadata tag indicating
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whether I went back and integrated them into the rest of the knowledge graph.
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One way I could use this might be to text or email a note, or to have a quick
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capture program on my computer.
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## Requirements & Assumptions
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What should it do? What assumptions are being made about it? What's
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considered "in scope" and what won't the project try to do?
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Does it need to be compatible with any existing solutions or systems?
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If it's a daemon, how are you going to manage it?
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What are the dependencies that are assumed to be available?
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## System Design
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### Major components
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The system has two logical components: the artifact repository and the
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knowledge graph.
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#### Artifact repository
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There should be, at a minimum, a local artifact repository. It will have its
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own tooling and UI for interaction, as well as being linked to the knowledge
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graph.
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Previous prototypes stored artifact metadata in SQLite, and the contents of the
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artifacts in a blob store. The blob store is a content-addressable system for
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retrieving arbitrary data. A remote option might use an S3-equivalent like
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Minio.
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#### Knowledge graph
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The knowledge graph stores nodes. The current model stores the graph in SQLite,
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using an external file sync (e.g. syncthing) to sync the databases across
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machines.
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### Data model
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Previous prototypes used separate SQLite databases for the artifact repository
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and the knowledge graph.
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#### Single SQLite database
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The concern with a single SQLite database is that it would be accessed by two
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different systems, causing potential locking issues.
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This could be solved by a single unified backend server; this is the preferred
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approach.
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#### Split SQLite databases
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The original prototype split the databases for performance reasons. However,
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this was based on any empirical evidence.
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The major downside to this is that tags and categories are not shared between
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the artifact repository and the knowledge graph. Categories might make sense
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for splitting; e.g. an artifact category might be 'PDF' while a node might have
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the category 'Research'. However, tags should be shared between both systems.
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#### PostgreSQL database
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Another option is to to use postgres. This brings a heavy ops cost, while
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enabling a variety of replication and backup strategies.
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### Architectural overview
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[](/files/i/exo-arch.jpg)
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There is a backend server, `exod`, that will have a gRPC endpoint for
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communicating with frontends. The approach allows for a reverse-proxy front end
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on a public server over Tailscale for remote devices. It also maintains a local
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blob store, the database, and a connection to a remote minio server for backing
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up blobs and retrieving missing blobs.
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If a standard HTTP API is needed, it can be added in later. One potential use
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for this is for retrieving blobs (e.g. GET /artifacts/blob/id/...).
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## Supportability
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### Failure scenarios
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#### Data corruption
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If the data is corrupted locally, a local import from the remote end would
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restore it. Alternatively, it may be restored from local backups.
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If the data is corrupted remotely, a local export to the remote end would
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restore it.
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### Platform support
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The main program would ideally run on Linux primarily, but I'd like to be able
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to use it on my Windows desktop too.
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### Packaging and deployment
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## Security
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The gRPC endpoint should be authenticated. The system is intended to operate
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over localhost or a local network, so the use of TLS is probably untenable.
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[minica](https://github.com/jsha/minica) is an option, but then key rotation
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needs to be built in.
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A possible workaround is to only enable authentication (HTTP basic auth will
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suffice) on the reverse proxy, which will also have TLS.
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## Project Dependencies
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The software should rely on no external sources, except for the software
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packages that it uses. This can be mitigated with vendoring.
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## Open Issues
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* If I track each time a page was edited, does it make sense to roll this up?
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e.g. I don't track edits to the second, but maybe to the hour or day.
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## Milestones
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1. Specifications
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a. Write up spec for the artifact repository data structures.
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b. Write up a spec for the knowledge graph data structures.
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2. Core systems
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a. Build the artifact repository server.
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b. Build the backend for the knowledge graph.
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c. Build rough CLI interfaces to both.
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3. Build the user interfaces.
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a. Simple note taking.
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b. Artifact upload and searching by tag, content type, title.
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## Review History
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This may not be applicable, but it's usually nice to have someone else
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sanity check this.
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Keep a table of who reviewed the doc and when, for in-person reviews. Consider
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having at least 1 in-person review.
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