dayhoff-tools 1.13.16__tar.gz → 1.13.17__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/PKG-INFO +1 -1
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/engine_commands.py +17 -8
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/pyproject.toml +1 -1
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/README.md +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/__init__.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/chemistry/standardizer.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/chemistry/utils.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/__init__.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/cloud_commands.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engine1/__init__.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engine1/engine_core.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engine1/engine_lifecycle.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engine1/engine_maintenance.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engine1/engine_management.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engine1/shared.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engine1/studio_commands.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/__init__.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/api_client.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/auth.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/engine-studio-cli.md +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/progress.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/simulators/cli-simulators.md +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/simulators/demo.sh +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/simulators/engine_list_simulator.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/simulators/engine_status_simulator.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/simulators/idle_status_simulator.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/simulators/simulator_utils.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/simulators/studio_list_simulator.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/simulators/studio_status_simulator.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/studio_commands.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/github_commands.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/main.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/swarm_commands.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/utility_commands.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/deployment/base.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/deployment/deploy_aws.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/deployment/deploy_gcp.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/deployment/deploy_utils.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/deployment/job_runner.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/deployment/processors.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/deployment/swarm.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/embedders.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/fasta.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/file_ops.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/h5.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/intake/gcp.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/intake/gtdb.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/intake/kegg.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/intake/mmseqs.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/intake/structure.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/intake/uniprot.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/logs.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/sqlite.py +0 -0
- {dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/warehouse.py +0 -0
{dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engines_studios/engine_commands.py
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@@ -1121,19 +1121,28 @@ def debug_engine(name_or_id: str, env: Optional[str]):
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click.echo(f"Current Stage: {readiness.get('current_stage', 'unknown')}")
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click.echo(f"\nBootstrap Stages:")
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# Deduplicate stages by name, keeping the latest status for each
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# (bootstrap reports both "starting" and "completed" for each stage)
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stages_by_name: dict[str, dict] = {}
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for stage in readiness.get("stages", []):
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name = stage.get("name", "unknown")
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stages_by_name[name] = stage # Later entries overwrite earlier ones
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for i, (name, stage) in enumerate(stages_by_name.items(), 1):
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status = stage.get("status", "unknown")
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duration = (
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stage.get("duration_ms", 0) / 1000 if stage.get("duration_ms") else None
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)
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# Map status to icon: completed=✓, starting/in_progress=⏳, failed=✗
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if status == "completed":
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icon = "✓"
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elif status in ("starting", "in_progress"):
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icon = "⏳"
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icon = "✗"
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else:
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icon = "?" # Unknown status
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duration_str = f" ({duration:.1f}s)" if duration else ""
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click.echo(f" {icon} {i}. {name}{duration_str}")
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[project]
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name = "dayhoff-tools"
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version = "1.13.
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version = "1.13.17"
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description = "Common tools for all the repos at Dayhoff Labs"
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authors = [
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{name = "Daniel Martin-Alarcon", email = "dma@dayhofflabs.com"}
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{dayhoff_tools-1.13.16 → dayhoff_tools-1.13.17}/dayhoff_tools/cli/engine1/engine_lifecycle.py
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