Format condensed entries as human-readable text. Output format: ```text [User] Fix the auth bug in login.rs [Assistant] I'll fix the token validation

Format learnings as individual list items grouped by category. Only includes **Repo** and **Workflow** learnings. Code learnings (with file:line refe

Format entries for oneline output. # Arguments `entries` - History entries to format `hash_length` - Number of hash characters to display # Returns

Format the change for short output.

Build hunks from a diff result with context lines. This function groups diff operations into hunks with the specified number of context lines around

Generate diff operations between two content blobs. Converts content to lines and runs the specified diff algorithm. # Arguments `old_content` - Ol

Get the default remote, if one is configured. Returns the first remote marked as default, or "origin" if it exists and no other default is set. # Ex

Get the raw contents of a file. Returns `None` if the file doesn't exist or is a directory. # Example ```rust use atomic_core::output::Memory; let

Get the message for the revised change.

Get the Merkle state at a given sequence number.

Filter by identity type.

Set whether to include deleted content.

Set whether to include deleted vertices. # Arguments `include` - Whether to include deleted content # Example ```rust use atomic_core::output::rep

Initialize the embeddings table.

Mark a vertex as "skip" — it belongs to a resolved SCC but is not the lead vertex.

Returns true if the token is alive (not deleted).

Check if this status represents a change that needs to be recorded. Returns `true` for statuses that indicate uncommitted changes.

Check if the builder is empty (no changes recorded). # Returns `true` if no hunks have been recorded yet.

Check if no files were collected.

Check if the tracker is empty.

Determine if a declaration is exported (publicly visible). Walks the immediate children of the declaration node looking for access-level modifiers. S

Iterate over all attestation hashes on disk.

Returns the number of selected layers.

Get the number of signatures.

List all tracked files. # Arguments `txn` - A transaction (read or write) # Returns A vector of all tracked files and directories.

Load an attestation from the repository by hash.

Load a keypair for an identity.

Create a short prefix from a session ID for use in node IDs. Takes up to the first 8 characters. If the session ID is a UUID, this is the first segme

Merge another outcome into this one. This is useful when collecting results from multiple output operations (e.g., outputting different subtrees). #

Merge results from a file output.

Merge new items into existing section headings without duplicating headings. If `### Repo` already exists in the section, new repo items are appended

Merge `source` paths into `target`, deduplicating.

Iterate over modified files.

Iterate over modified lines.

Normalize a path by resolving `.` and `..` components. Unlike `canonicalize()`, this doesn't require the path to exist.

Parse the algorithm string into an Algorithm enum.

Parse the algorithm string into an Algorithm enum.

Parse the author string into an Author struct.

Parse a changelist response into entries.

Check if a change ID passes the filter. Returns true if: - No filter is set (all changes pass) - The change_id is ROOT (NodeId(0), always passes) - T

Add a permission.

Get the current byte position in the original content.

Print a section header. Use this to visually separate different sections of output. # Arguments `title` - The section title # Example ```rust,ign

Print the status in short (porcelain) format.

Process a deletion. # Arguments `old_index` - Starting line in old content `new_index` - Position in new content (deletion point) `old_len` - Number

Returns the prompt truncated to `max_len` characters. Useful for display purposes (commit messages, UI previews). Returns `None` if no prompt is pres

Record a single deleted file. Creates a deletion graph_op for a file that no longer exists in the working copy. # Arguments `detected` - The detect

Record a successfully downloaded change. Increments the download counter. # Example ```rust use atomic::commands::clone::types::CloneProgress; let

Record an agent turn as an Atomic change. This is the function that bridges the agent world into the VCS world. It builds a `ChangeHeader`, `Provenan

Register an entity in the identity tables. Creates INTERNAL (hash → id), EXTERNAL (id → hash), and NODE_TYPES (id → type) entries. Returns existing i

Rename a file or directory.

Resolve the agent author for a turn change. Looks up the user's default identity and derives an agent author with a `+tag` email. Falls back to a pla

Resolve the destination path. If destination is a directory, append the source filename.

Resolve the best available embedding provider from environment.

Extract the identity name from a remote URL alone (no server config). Tries URL userinfo first (`bob@host`), then the subdomain (`bob.host`). This is

Resolve the identity name to authenticate as. Priority: 1. An explicit override (the `--identity` flag). 2. URL userinfo (`http://bob@host/...`). 3.

Resolve the current identity for vault operations. Resolution order: 1. Atomic identity store (default identity) 2. Git config (user.name + user.emai

Resolve the workspace slug for a command, with fallback to the org-scoped default workspace from global config. Uses the legacy (single-server) confi

Inner runner that takes the slug-verification step as a parameter. Splitting this out lets tests inject a deterministic verifier (succeed / fail) wit

Set the CRDT build statistics.

Set the inode.

Sets the token kind.

Attach the managed-run context for this hook invocation (see [`ManagedRunContext`]).

Set the AI vendor and model.

Returns `true` for machine-generated files (lockfiles, checksums, bundled output) that should be treated as opaque blobs — skipping CRDT tokenization

Strip markdown code block wrappers from a JSON string. Claude sometimes wraps JSON in ```json ... ``` blocks despite being asked not to. This strips