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Glama
sciflow-mcp
by Claybarn

Server Configuration

Describes the environment variables required to run the server.

NameRequiredDescriptionDefault
SCIFLOW_STORENoPath to the sciflow content-addressed artifact store. The README examples set this via the MCP client env configuration.

Instructions

Guidance the server publishes about itself, which clients place ahead of the tool catalog so the model reads it before choosing anything.

This server publishes no instructions, or was last inspected before Glama recorded them.

Capabilities

Features and capabilities supported by this server

Protocol revision2025-11-25

CapabilityDetails
tools
{
  "listChanged": false
}
prompts
{
  "listChanged": false
}
resources
{
  "subscribe": false,
  "listChanged": false
}

Tools

Functions exposed to the LLM to take actions

NameDescription
list_operationsA

List available operations with their input kinds and output kind. Optionally filter by category (intervals, series, filtering, peri-event, correlation, alignment).

describe_operationC

Full documentation and JSON schema of an operation's parameters.

import_dataB

Import a .npy/.npz/.mat/.csv file into the store and return its artifact id.

Series: the array under data_key with its parametric axis at index parametric_axis, paired with stamps_key (default 'stamps' or Collate's 'timestamps'), or stamps generated from sample_rate and start. ticks_per_unit divides raw stamps (e.g. 30000 for sample numbers at 30 kHz). axes labels every axis, the first naming the parametric axis; or pass just axis (e.g. "depth") and its unit. Intervals: ons_key/offs_key, or times_key for point events, on parametric axis. stream selects one struct in a Collate-style .mat file. CSV series use stamp_column (default: first).

list_artifactsB

List every artifact in the store.

inspect_artifactA

Summarise an artifact (parametric axis and unit, shape, axes, extent, sample rate, NaN fraction) and how it was produced. Accepts a full id or a unique prefix.

register_datasetB

Register an experiment: {name, sessions: [{id, subject, attributes: {condition: ..., day: ...}, inputs: {: | {path, kind, options}}}]}. File inputs are imported (options are import_data's keyword arguments). Returns a content-derived dataset id that pins the exact data.

get_datasetC

A registered dataset's sessions, subjects, attributes and input artifact ids. With no id, lists datasets.

compare_artifactsA

Check whether two artifacts agree numerically, e.g. the same step run on a laptop and on a cluster. Ids are hashes of exact bytes, so different hardware can give different ids for results that agree to ~1e-15; this compares kind, axes, stamps, coordinates and data within |a - b| <= atol + rtol * |b|.

validate_workflowA

Statically check a workflow or pipeline (JSON object, YAML/JSON text, or file path): references, cycles, input/output kinds and parameters. Returns the execution order and each step's output kind; pipelines are compiled first (session steps appear as '__').

run_workflowA

Run a workflow or pipeline locally. Steps whose (operation, version, params, inputs) already ran are reused from cache unless force, so adding sessions to a dataset only runs the new ones. Returns run_id, per-step outputs (summarised for pipelines) and the workflow outputs.

visualize_workflowA

Draw a workflow or pipeline: Mermaid flowchart text (render it for the user), or the node / edge graph as JSON for a visual editor. Pipelines show their session steps once, inside an 'each of N sessions' block, with the artifact kind on every edge.

get_runA

Full provenance record of a run (resolved workflow, environment and package versions, every step's params, inputs, outputs and cache key). With no run_id, lists recent runs.

export_workflowB

Compile a workflow or pipeline into cluster jobs that each run one step against a shared store (a pipeline's sessions run in parallel; its aggregate steps wait for all of them).

slurm options: store_path, partition, time, mem, cpus, account, setup (shell lines, e.g. module load), sciflow_cmd, extra_sbatch. argo options: image, namespace, store_pvc, cpu, memory.

export_artifactC

Write an artifact to disk as .npz, .mat (Collate struct layout, readable in MATLAB), .csv, or 'table': a long-format CSV with one row per element and columns for every axis plus subject / condition / other attributes of stacked sessions (ready for mixed-effects models in R or statsmodels).

Prompts

Interactive templates invoked by user choice

NameDescription

No prompts

Resources

Contextual data attached and managed by the client

NameDescription

No resources

TDQS

A3.5/5.0

Scored across 14 tools

Disambiguation4/5

Most tools map to a distinct resource+action: operations (list/describe), artifacts (import/list/inspect/compare/export), datasets (register/get), workflows (validate/run/visualize/export) and runs (get_run). The only soft overlaps are the four *_workflow tools and three *_artifact tools, but their descriptions (static check vs. execute vs. draw vs. compile to cluster jobs; inspect vs. compare vs. write to disk) clearly separate them. get_dataset doubling as 'list datasets' when no id is given is a minor collision with list_artifacts.

Naming Consistency5/5

Every tool follows a single snake_case verb_noun convention (list_operations, register_dataset, run_workflow, export_artifact). Verbs are reused consistently for the same intent (list_, get_, export_, *_workflow), making the surface predictable.

Tool Count5/5

14 tools sits squarely in the well-scoped range and each one corresponds to a real lifecycle stage (discovery, import/store, dataset registration, workflow validate/run/visualize/export, provenance, artifact export). No obviously redundant or filler tools.

Completeness4/5

The core pipeline is covered end to end: discover operations, import data, register datasets, validate/run/visualize/export workflows, inspect provenance, and export results for R/statsmodels. Gaps are minor: no delete/prune for artifacts or datasets, no explicit in-memory artifact data read (only summary via inspect or disk write via export), and no workflow listing tool.

Maintenance

ActivityMaintained
ResponsivenessNo issues