dayhoff-tools 1.11.4__tar.gz → 1.11.5__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-1.11.4 → dayhoff_tools-1.11.5}/PKG-INFO +2 -1
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/utility_commands.py +14 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/pyproject.toml +2 -1
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/README.md +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/__init__.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/chemistry/standardizer.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/chemistry/utils.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/__init__.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/cloud_commands.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/engine/__init__.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/engine/engine_core.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/engine/engine_lifecycle.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/engine/engine_maintenance.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/engine/engine_management.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/engine/shared.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/engine/studio_commands.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/main.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/swarm_commands.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/deployment/base.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/deployment/deploy_aws.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/deployment/deploy_gcp.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/deployment/deploy_utils.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/deployment/job_runner.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/deployment/processors.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/deployment/swarm.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/embedders.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/fasta.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/file_ops.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/h5.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/intake/gcp.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/intake/gtdb.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/intake/kegg.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/intake/mmseqs.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/intake/structure.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/intake/uniprot.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/logs.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/sqlite.py +0 -0
 - {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/warehouse.py +0 -0
 
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            Metadata-Version: 2.4
         
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            Name: dayhoff-tools
         
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            Version: 1.11. 
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            Version: 1.11.5
         
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            Summary: Common tools for all the repos at Dayhoff Labs
         
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            Author: Daniel Martin-Alarcon
         
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            Author-email: dma@dayhofflabs.com
         
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         @@ -29,6 +29,7 @@ Requires-Dist: pyyaml (>=6.0) 
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            Requires-Dist: questionary (>=2.0.1)
         
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            Requires-Dist: rdkit-pypi (>=2022.9.5) ; extra == "full"
         
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            Requires-Dist: requests (>=2.31.0)
         
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            Requires-Dist: seaborn
         
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            Requires-Dist: sentencepiece (>=0.2.0) ; extra == "embedders"
         
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            Requires-Dist: sentencepiece (>=0.2.0) ; extra == "full"
         
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            Requires-Dist: sqlalchemy (>=2.0.40,<3.0.0) ; extra == "full"
         
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                        mac_pyproject = mac_uv_dir / "pyproject.toml"
         
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                        mac_pyproject.write_text(mac_manifest.read_text())
         
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                        # Copy README.md if it exists (required by some build backends)
         
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                        if Path("README.md").exists():
         
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                            (mac_uv_dir / "README.md").write_text(Path("README.md").read_text())
         
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                        # Ensure lock matches manifest (in mac temp dir)
         
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                        print("Ensuring lock file matches pyproject.mac.toml (Mac devcon)…")
         
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                        lock_cmd = ["uv", "lock"]
         
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                            aws_pyproject = aws_uv_dir / "pyproject.toml"
         
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                            aws_pyproject.write_text(aws_manifest.read_text())
         
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                            # Copy README.md if it exists (required by some build backends)
         
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                            if Path("README.md").exists():
         
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                                (aws_uv_dir / "README.md").write_text(Path("README.md").read_text())
         
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                            # Ensure lock matches manifest (in aws temp dir)
         
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                            print("Ensuring lock file matches pyproject.aws.toml (AWS devcon)…")
         
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                            lock_cmd = ["uv", "lock"]
         
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                    if platform == "mac" and mac_manifest.exists():
         
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                        mac_uv_dir.mkdir(parents=True, exist_ok=True)
         
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                        (mac_uv_dir / "pyproject.toml").write_text(mac_manifest.read_text())
         
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                        # Copy README.md if it exists (required by some build backends)
         
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                        if Path("README.md").exists():
         
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                            (mac_uv_dir / "README.md").write_text(Path("README.md").read_text())
         
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                        uv_cwd = str(mac_uv_dir)
         
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                        lock_file_path = mac_uv_dir / "uv.lock"
         
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                        manifest_path_for_constraint = mac_manifest
         
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                        # AWS platform (default)
         
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                        aws_uv_dir.mkdir(parents=True, exist_ok=True)
         
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                        (aws_uv_dir / "pyproject.toml").write_text(aws_manifest.read_text())
         
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                        # Copy README.md if it exists (required by some build backends)
         
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                        if Path("README.md").exists():
         
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                            (aws_uv_dir / "README.md").write_text(Path("README.md").read_text())
         
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                        uv_cwd = str(aws_uv_dir)
         
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                        lock_file_path = aws_uv_dir / "uv.lock"
         
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                        manifest_path_for_constraint = aws_manifest
         
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            [project]
         
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            name = "dayhoff-tools"
         
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            version = "1.11. 
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            version = "1.11.5"
         
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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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                "questionary>=2.0.1",
         
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                "tzdata>=2025.2",
         
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                "boto3>=1.36.8",
         
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                "seaborn",
         
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            ]
         
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            requires-python = ">=3.10,<4.0"
         
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        {dayhoff_tools-1.11.4 → dayhoff_tools-1.11.5}/dayhoff_tools/cli/engine/engine_maintenance.py
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