Shantanu Singh shntnu

shntnu / simplest_agent_notebook.py

Created May 15, 2026 21:12

Simplest agent loop, unrolled in a marimo notebook. Run: uvx marimo edit <url>

shntnu / sample_output.txt

Last active May 15, 2026 21:21

Simplest possible agent: LLM-in-a-loop with one bash tool, via Ollama. Run: uv run https://...


	═══ TURN 1 ═══
	→ sending 2 messages to qwen2.5:7b
	[0] system 'You are an agent with a bash tool. Always use the bash tool to gather informatio'
	[1] user 'How many files are in /tmp? Run a command to find out.'
	← assistant wants to call 1 tool(s):
	• bash({'cmd': 'ls -1 /tmp \| wc -l'})
	▶ running: ls -1 /tmp \| wc -l
	◀ stdout (3 bytes):
	'60\n'

shntnu / 2026-05-06__embl__apprentices.md

Created May 6, 2026 14:02

Apprentices - EMBL talk (Huber group), 6 May 2026

Apprentices

Shantanu Singh Sr. Group Leader, Broad Institute

shntnu / compoundvalet_identifier_gap.sql

Last active February 17, 2026 02:28

CompoundValet CSV identifier gap analysis — run in https://shell.duckdb.org/

	-- CompoundValet CSV: no structural identifiers → can't join to other databases
	-- Paste into https://shell.duckdb.org/
	--
	-- The Drug Repurposing Hub is a similar drug-target database but includes
	-- InChIKey, SMILES, and PubChem CID — making it instantly joinable.
	-- CompoundValet has only drug names.

	-- Load CompoundValet
	CREATE TABLE cv AS
	SELECT * FROM read_csv_auto(

shntnu / compute_etag.sh

Created July 25, 2022 18:51 — forked from rajivnarayan/compute_etag.sh

Calculate checksum corresponding to the entity-tag hash (ETag) of Amazon S3 objects

	#!/bin/bash
	#
	# Calculate checksum corresponding to the entity-tag hash (ETag) of Amazon S3 objects
	#
	# Usage: compute_etag.sh <filename> <part_size_mb>
	#
	# filename: file to process
	# part_size_mb: chunk size in MiB used for multipart uploads.
	# This is 8M by default for the AWS CLI See:
	# https://docs.aws.amazon.com/cli/latest/topic/s3-config.html#multipart_chunksize