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.

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

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

Load candidate bodies from the vault, score, and rank them.

Attempt to resolve conflicts using the semantic merge engine. Handles two kinds of conflict: 1. **Cyclic conflicts** — multi-vertex SCCs where Tarja

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 effective server config, honouring the optional name override. Resolution order: 1. `server_override` (from `--server <name>` CLI flag) 2

Resolve the workspace slug for a command, with fallback to the org-scoped default workspace from the **active** server profile. Loads global config,

Compute a row with an explicit verifier keypair (no global store).

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

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

Lowercased, deduplicated terms using KG FTS rules plus a small allowlist of meaningful short technology names. Exact token matching prevents substring

Node id for a session ledger.

Set the CRDT build statistics.

Set the current view (internal, does not update working copy). Update the view pointer on disk without materializing. This updates both the in-memor

Set the inode.

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

Convert this entry to a Node. Respects the `tagged` field: tagged entries become `Node::tag`, regular entries become `Node::change`.

Convert the accumulated graph to a content-addressed `ProvenanceGraph` suitable for storage in the Atomic graph alongside changes and attestations. P

Convert to retrieve options for the alive graph module.

Tokenize a single file's content. This runs on a rayon worker thread for parallel regeneration.

The `urn:atomic:triage:<blake3-hex>` reference for a set of pins. `candidate_changes` is sorted before hashing so a triage over the same set of chang

Store mtime + size + content hash for a batch of files in a single transaction. This populates the file index so that `status` can compare file metad

Reconcile lifecycle metadata for a session record. Called from agent session start/end hooks. Creates the record if the session has no ledger entries

Ensure a grant mutation targets a concrete user or team. `Everyone` is emitted by Storage when listing public grants, but the mutation endpoints requ

Validate a session ID to prevent path traversal. Rejects IDs containing `..`, `/`, `\`, or null bytes.

Embed a single vault entry using the provided embedding function. Chunks the content by heading/paragraph, computes embeddings via `embed_fn`, and st

Delete an unstarted backlog intent. This is intentionally conservative: only backlog intents with no linked goals can be deleted. Started work should

Format a warning message in yellow. Use this for warnings, cautions, or situations that need attention but aren't errors. # Arguments `text` - The

Sets whether to use code-aware tokenization.

Sets whether to use code-aware tokenization. When enabled, the tokenizer recognizes multi-character operators, string literals, numeric literals, and

Builder: set the dry-run flag.

Builder: set the `--force` flag.

Builder: set the output format.

Builder: set the starting sequence number.

Builder: set full hash display.

Set the maximum file size for diffing. Files larger than this are treated as binary. # Arguments `size` - Maximum size in bytes, or `None` for no l

Set the modification time.

Builder: set the name-only flag.

Builder: set the no-color flag.

Builder: set whether to hide untracked files.

Builder: set the remote name or URL.

Builder: set the remote state.

Builder: set tags-only filter.

Builder: set the timeout in seconds.

Add a warning.

Add another `PhaseTokens` into `self` (used for running totals).

Add a credit to the statistics.

Adds a branch operation with its ID.

Add a directory item.

Associate an inode update with a graph_op. When the change is applied locally, this update will be used to maintain the tree/inode database tables.

Adds a leaf operation with its ID.

Adds a new line to a file and returns its branch ID. # Arguments `trunk_id` - The file to add the line to `after` - The branch to insert after (None

Adds a line to this file.

Record a missing up-context position.

Add a pending edge to be created.