dayhoff-tools 1.14.0__tar.gz → 1.14.1__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-1.14.0 → dayhoff_tools-1.14.1}/PKG-INFO +1 -1
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/main.py +37 -10
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/pyproject.toml +1 -1
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/README.md +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/__init__.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/chemistry/standardizer.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/chemistry/utils.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/__init__.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/cloud_commands.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engine1/__init__.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engine1/engine_core.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engine1/engine_lifecycle.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engine1/engine_maintenance.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engine1/engine_management.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engine1/shared.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engine1/studio_commands.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/__init__.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/api_client.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/auth.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/engine-studio-cli.md +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/engine_commands.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/progress.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/simulators/cli-simulators.md +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/simulators/demo.sh +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/simulators/engine_list_simulator.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/simulators/engine_status_simulator.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/simulators/idle_status_simulator.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/simulators/simulator_utils.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/simulators/studio_list_simulator.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/simulators/studio_status_simulator.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/studio_commands.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/github_commands.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/swarm_commands.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/utility_commands.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/deployment/base.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/deployment/deploy_aws.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/deployment/deploy_gcp.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/deployment/deploy_utils.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/deployment/job_runner.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/deployment/processors.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/deployment/swarm.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/embedders.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/fasta.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/file_ops.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/h5.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/intake/gcp.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/intake/gtdb.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/intake/kegg.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/intake/mmseqs.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/intake/structure.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/intake/uniprot.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/logs.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/sqlite.py +0 -0
- {dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/warehouse.py +0 -0
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@@ -6,7 +6,7 @@ from importlib.metadata import PackageNotFoundError, version
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import typer
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from dayhoff_tools.cli.cloud_commands import aws_app, gcp_app
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from dayhoff_tools.cli.github_commands import gh_app
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from dayhoff_tools.cli.engine1 import engine_app, studio_app
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from dayhoff_tools.cli.engine1 import engine_app as engine1_app, studio_app as studio1_app
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from dayhoff_tools.cli.utility_commands import (
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add_dependency,
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build_and_upload_wheel,
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@@ -70,23 +70,50 @@ app.add_typer(gcp_app, name="gcp", help="Manage GCP authentication and impersona
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app.add_typer(aws_app, name="aws", help="Manage AWS SSO authentication.")
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app.add_typer(gh_app, name="gh", help="Manage GitHub authentication.")
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# Engine and Studio commands (
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app.
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# Engine and Studio commands (v2 - new default with progress tracking)
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# These use Click instead of Typer, so we need a passthrough wrapper
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@app.command(
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"engine",
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context_settings={"allow_extra_args": True, "ignore_unknown_options": True},
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add_help_option=False,
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)
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def engine_cmd(ctx: typer.Context):
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"""Manage compute engines for development."""
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from dayhoff_tools.cli.engines_studios import engine_cli
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# Pass arguments directly to Click CLI
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engine_cli(ctx.args, standalone_mode=False)
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@app.command(
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"studio",
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context_settings={"allow_extra_args": True, "ignore_unknown_options": True},
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add_help_option=False,
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)
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def studio_cmd(ctx: typer.Context):
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"""Manage persistent development studios."""
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from dayhoff_tools.cli.engines_studios import studio_cli
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# Pass arguments directly to Click CLI
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studio_cli(ctx.args, standalone_mode=False)
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# Engine and Studio commands (v1 - legacy, uses old infrastructure)
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app.add_typer(engine1_app, name="engine1", help="[Legacy v1] Manage engines.")
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app.add_typer(studio1_app, name="studio1", help="[Legacy v1] Manage studios.")
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# Backward compatibility aliases for v2 commands (engine2/studio2 -> engine/studio)
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@app.command(
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"engine2",
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context_settings={"allow_extra_args": True, "ignore_unknown_options": True},
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hidden=True, # Hide from help, but still works
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)
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def engine2_cmd(ctx: typer.Context):
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"""
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"""[Alias] Use 'dh engine' instead."""
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# Pass arguments directly to Click CLI
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context_settings={"allow_extra_args": True, "ignore_unknown_options": True},
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add_help_option=False,
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hidden=True, # Hide from help, but still works
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)
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def studio2_cmd(ctx: typer.Context):
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"""
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"""[Alias] Use 'dh studio' instead."""
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@@ -5,7 +5,7 @@ build-backend = "poetry.core.masonry.api"
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[project]
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name = "dayhoff-tools"
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version = "1.14.
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version = "1.14.1"
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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-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engine1/engine_maintenance.py
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{dayhoff_tools-1.14.0 → dayhoff_tools-1.14.1}/dayhoff_tools/cli/engines_studios/engine-studio-cli.md
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