.env.example

# ============================================
# API Keys
# ============================================

# Azure OpenAI Configuration
AZURE_OPENAI_API_KEY_EUS2=your-azure-openai-key-eus2
AZURE_OPENAI_API_KEY_SC=your-azure-openai-key-sc
AZURE_OPENAI_URL_SC=https://your-resource.openai.azure.com/
AZURE_OPENAI_URL_EUS2=https://your-resource.openai.azure.com/

# Anthropic API Key
ANTHROPIC_API_KEY=sk-ant-api03-your-key-here

# OpenAI API Key
OPENAI_API_KEY=sk-your-openai-key
# OPENAI_BASE_URL=https://api.openai.com/v1/chat/completions

# Together AI API Key
TOGETHER_API_KEY=

# Google GenAI API Key
GENAI_API_KEY=

# Groq API Key
GROQ_API_KEY=

# ============================================
# GitHub Configuration
# ============================================

# GitHub Token for repo access
GITHUB_TOKEN=

# GitHub API Key for auto-submission features
GITHUB_API_KEY=

# ============================================
# Base Paths (CHANGE THIS - all other paths derive from it)
# ============================================

# Root workspace directory
WORKSPACE_ROOT=/path/to/your/workspace

# ============================================
# Logging Configuration
# ============================================

# Log level for stream output (TRACE, DEBUG, INFO, WARNING, ERROR)
SWE_AGENT_LOG_STREAM_LEVEL=DEBUG

# Show timestamps in logs (true/false)
SWE_AGENT_LOG_TIME=false

# ============================================
# SWE-Agent Directory Configuration
# ============================================

# Config directory (default: <repo>/config)
# SWE_AGENT_CONFIG_DIR=

# Tools directory (default: <repo>/tools)
# SWE_AGENT_TOOLS_DIR=

# Trajectory output directory (default: <repo>/trajectories)
# SWE_AGENT_TRAJECTORY_DIR=

# Config root path
# SWE_AGENT_CONFIG_ROOT=

# ============================================
# VM Configuration (VMware) - LEGACY, use Docker Native instead
# ============================================

VM_USER=user
VM_PASSWORD=password

# Path to VMware VM file (.vmx)
HOST_VM_FILE=/path/to/your/Ubuntu.vmx

# VM working directory (inside the VM)
VM_WORKING_DIR=/home/user/Documents/WorkingDir

# VMware connection settings
VMWARE_PORT=4000
VMWARE_TIMEOUT=120
VM_SNAPSHOT_NAME=init_state

# ============================================
# Docker Native Configuration (Recommended)
# ============================================

# Docker image to use
DOCKER_NATIVE_IMAGE=sweagent/ubuntu-wayland:latest

# Port mappings (use higher ports to avoid conflicts)
DOCKER_SERVER_PORT=15000
DOCKER_SWEREX_PORT=14000
DOCKER_VNC_PORT=15900
DOCKER_XPRA_PORT=18080

# Container working directory
CONTAINER_WORKING_DIR=/home/user/Documents/WorkingDir

# Container data directory (for mounted datasets)
CONTAINER_DATA_DIR=/home/user/data

# Config file for VMware runs
CONFIG_FILE=vmware_cell_test.yaml

# ============================================
# Desktop Environment Settings
# ============================================

# Screen size (width x height)
SCREEN_WIDTH=1200
SCREEN_HEIGHT=800

# Desktop environment options
HEADLESS=false
REQUIRE_A11Y_TREE=true
REQUIRE_TERMINAL=true
OS_TYPE=Ubuntu
ACTION_SPACE=computer_13

# ============================================
# Web Browser Configuration (for web_browser tool)
# ============================================

WEB_BROWSER_PORT=8009
WEB_BROWSER_AUTOSCREENSHOT=1
WEB_BROWSER_SCREENSHOT_MODE=save
WEB_BROWSER_WINDOW_WIDTH=1024
WEB_BROWSER_WINDOW_HEIGHT=768
WEB_BROWSER_HEADLESS=1
WEB_BROWSER_SCREENSHOT_DELAY=0.2
WEB_BROWSER_BROWSER_TYPE=chromium
WEB_BROWSER_RECONNECT_TIMEOUT=15
# WEB_BROWSER_CHROMIUM_EXECUTABLE_PATH=
# WEB_BROWSER_FIREFOX_EXECUTABLE_PATH=

# ============================================
# Host Machine Paths
# ============================================

# Training/Testing Dataset Directories
HOST_TRAINING_DIR=/path/to/data/CellProfiler-Benchmark/CellProfiler-Training
HOST_TESTING_DIR=/path/to/data/CellProfiler-Benchmark/CellProfiler-Testing

# Results output directory
RESUME_OUTPUT_DIR=/path/to/results
HOST_RESULTS_DIR=/path/to/results

# Input directory (for JUMP Discovery)
HOST_INPUT_DIR=/path/to/data/JUMPDiscovery

# ============================================
# Application Paths
# ============================================

# CellProfiler executable path (in container)
CELLPROFILER_PATH=/opt/miniforge3/envs/cellprofiler/bin/cellprofiler

# Local development path (inside container)
LOCAL_DEV_PATH=/home/user/Documents/WorkingDir

# QuPath path (relative to /home/user/ in container)
QUPATH_PATH=qupath/build/dist/QuPath/bin

# ============================================
# Conda Environment Configuration
# ============================================

# Default conda environment name
ENV_NAME=python39

# ============================================
# Dataset Paths (for upload scripts)
# ============================================

# Pathology dataset
PATHOLOGY_DATASET_PATH=/path/to/data/Pathology-Dataset

# CellProfiler dataset
CELLPROFILER_DATASET_PATH=/path/to/data/CellProfiler-Benchmark

# JUMP Discovery dataset
JUMPDISCOVERY_DATASET_PATH=/path/to/data/JUMPDiscovery

# ============================================
# Metrics/Evaluation Paths
# ============================================

# Ground truth directory for evaluations
GROUND_TRUTH_DIR=/path/to/metrics/ground_truth

# Compare directory for measurements
COMPARE_DIR=/path/to/dev/measurements

# Evaluation threshold
EVALUATION_THRESHOLD=0.5

# ============================================
# Model Configuration
# ============================================

# Default model name
DEFAULT_MODEL=claude-sonnet-4-5-20250929

# Cost limits
PER_INSTANCE_COST_LIMIT=50.0
TOTAL_COST_LIMIT=0.0

# Model parameters
MODEL_TEMPERATURE=0.5
MODEL_TOP_P=0.9
MODEL_MAX_TOKENS=1500

# ============================================
# Agent Configuration
# ============================================

# Maximum trajectory length
MAX_TRAJECTORY_LENGTH=70

# Tool execution timeout (seconds)
EXECUTION_TIMEOUT=600

# Accessibility tree max tokens
A11Y_TREE_MAX_TOKENS=10000

# ============================================
# Run Configuration
# ============================================

# Resume mode
RESUME_MODE=false

# Config file name (in config/ directory) - set in Docker Native Configuration section above
# CONFIG_FILE=vmware_cell.yaml  # Use CONFIG_FILE in Docker Native section

# Maximum number of runs
MAXIMUM_RUNS=20

# GitHub repo URL for auto-submission
REPO_URL=https://github.com/your-org/your-repo

# ============================================
# Retry Loop Configuration
# ============================================

RETRY_MAX_ATTEMPTS=1
RETRY_ACCEPT_SCORE=0.8
RETRY_COST_LIMIT=20.0

# ============================================
# Napari Configuration
# ============================================

# Napari cache path
NAPARI_CACHE_PATH=/path/to/.napari_cache/

# ============================================
# Optional: Hugging Face
# ============================================

# HF_TOKEN=