tooluniverse 1.0.6__py3-none-any.whl → 1.0.7__py3-none-any.whl

tooluniverse/tools/get_igraph_info.py

@@ -0,0 +1,49 @@
+"""
+get_igraph_info
+
+Get comprehensive information about igraph – network analysis and visualization
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_igraph_info(
+    include_examples: bool,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get comprehensive information about igraph – network analysis and visualization
+
+    Parameters
+    ----------
+    include_examples : bool
+        Whether to include usage examples and quick start guide
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {
+            "name": "get_igraph_info",
+            "arguments": {"include_examples": include_examples},
+        },
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_igraph_info"]

tooluniverse/tools/get_imageio_info.py

@@ -0,0 +1,44 @@
+"""
+get_imageio_info
+
+Get information about the imageio package. Python library for reading and writing image data
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_imageio_info(
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get information about the imageio package. Python library for reading and writing image data
+
+    Parameters
+    ----------
+    No parameters
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_imageio_info", "arguments": {}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_imageio_info"]

tooluniverse/tools/get_imbalanced_learn_info.py

@@ -0,0 +1,44 @@
+"""
+get_imbalanced_learn_info
+
+Get information about the imbalanced-learn package. Python toolbox for imbalanced dataset learning
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_imbalanced_learn_info(
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get information about the imbalanced-learn package. Python toolbox for imbalanced dataset learning
+
+    Parameters
+    ----------
+    No parameters
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_imbalanced_learn_info", "arguments": {}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_imbalanced_learn_info"]

tooluniverse/tools/get_jcvi_info.py

@@ -0,0 +1,46 @@
+"""
+get_jcvi_info
+
+Get comprehensive information about JCVI – genome assembly and comparative genomics
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_jcvi_info(
+    info_type: str,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get comprehensive information about JCVI – genome assembly and comparative genomics
+
+    Parameters
+    ----------
+    info_type : str
+        Type of information to retrieve about JCVI
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_jcvi_info", "arguments": {"info_type": info_type}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_jcvi_info"]

tooluniverse/tools/get_joblib_info.py

@@ -0,0 +1,44 @@
+"""
+get_joblib_info
+
+Get information about the joblib package. Lightweight pipelining with Python functions
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_joblib_info(
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get information about the joblib package. Lightweight pipelining with Python functions
+
+    Parameters
+    ----------
+    No parameters
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_joblib_info", "arguments": {}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_joblib_info"]

tooluniverse/tools/get_joint_associated_diseases_by_HPO_ID_list.py

@@ -0,0 +1,55 @@
+"""
+get_joint_associated_diseases_by_HPO_ID_list
+
+Retrieve diseases associated with a list of phenotypes or symptoms by a list of HPO IDs.
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_joint_associated_diseases_by_HPO_ID_list(
+    HPO_ID_list: list[Any],
+    limit: Optional[int] = None,
+    offset: Optional[int] = None,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Retrieve diseases associated with a list of phenotypes or symptoms by a list of HPO IDs.
+
+    Parameters
+    ----------
+    HPO_ID_list : list[Any]
+        List of phenotypes or symptoms
+    limit : int
+        Number of entries to fetch.
+    offset : int
+        Number of initial entries to skip.
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {
+            "name": "get_joint_associated_diseases_by_HPO_ID_list",
+            "arguments": {"HPO_ID_list": HPO_ID_list, "limit": limit, "offset": offset},
+        },
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_joint_associated_diseases_by_HPO_ID_list"]

tooluniverse/tools/get_khmer_info.py

@@ -0,0 +1,46 @@
+"""
+get_khmer_info
+
+Get comprehensive information about khmer – nucleotide sequence k-mer analysis
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_khmer_info(
+    info_type: str,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get comprehensive information about khmer – nucleotide sequence k-mer analysis
+
+    Parameters
+    ----------
+    info_type : str
+        Type of information to retrieve about khmer
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_khmer_info", "arguments": {"info_type": info_type}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_khmer_info"]

tooluniverse/tools/get_kipoiseq_info.py

@@ -0,0 +1,44 @@
+"""
+get_kipoiseq_info
+
+Get information about the kipoiseq package. Kipoi sequence utilities for genomics deep learning
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_kipoiseq_info(
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get information about the kipoiseq package. Kipoi sequence utilities for genomics deep learning
+
+    Parameters
+    ----------
+    No parameters
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_kipoiseq_info", "arguments": {}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_kipoiseq_info"]

tooluniverse/tools/get_lifelines_info.py

@@ -0,0 +1,49 @@
+"""
+get_lifelines_info
+
+Get comprehensive information about lifelines – survival analysis in Python
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_lifelines_info(
+    include_examples: bool,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get comprehensive information about lifelines – survival analysis in Python
+
+    Parameters
+    ----------
+    include_examples : bool
+        Whether to include usage examples and quick start guide
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {
+            "name": "get_lifelines_info",
+            "arguments": {"include_examples": include_examples},
+        },
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_lifelines_info"]

tooluniverse/tools/get_ligand_bond_count_by_pdb_id.py

@@ -0,0 +1,46 @@
+"""
+get_ligand_bond_count_by_pdb_id
+
+Get the number of bonds for each ligand in a given PDB structure.
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_ligand_bond_count_by_pdb_id(
+    pdb_id: str,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get the number of bonds for each ligand in a given PDB structure.
+
+    Parameters
+    ----------
+    pdb_id : str
+        PDB ID of the entry
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_ligand_bond_count_by_pdb_id", "arguments": {"pdb_id": pdb_id}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_ligand_bond_count_by_pdb_id"]

tooluniverse/tools/get_ligand_smiles_by_chem_comp_id.py

@@ -0,0 +1,49 @@
+"""
+get_ligand_smiles_by_chem_comp_id
+
+Retrieve the SMILES chemical structure string for a given chemical component (ligand) ID.
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_ligand_smiles_by_chem_comp_id(
+    chem_comp_id: str,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Retrieve the SMILES chemical structure string for a given chemical component (ligand) ID.
+
+    Parameters
+    ----------
+    chem_comp_id : str
+        Chemical component ID (e.g., 'ATP')
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {
+            "name": "get_ligand_smiles_by_chem_comp_id",
+            "arguments": {"chem_comp_id": chem_comp_id},
+        },
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_ligand_smiles_by_chem_comp_id"]

tooluniverse/tools/get_lightgbm_info.py

@@ -0,0 +1,44 @@
+"""
+get_lightgbm_info
+
+Get information about the lightgbm package. Fast gradient boosting framework
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_lightgbm_info(
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get information about the lightgbm package. Fast gradient boosting framework
+
+    Parameters
+    ----------
+    No parameters
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_lightgbm_info", "arguments": {}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_lightgbm_info"]

tooluniverse/tools/get_loompy_info.py

@@ -0,0 +1,46 @@
+"""
+get_loompy_info
+
+Get comprehensive information about loompy – efficient storage for large omics datasets
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_loompy_info(
+    info_type: str,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get comprehensive information about loompy – efficient storage for large omics datasets
+
+    Parameters
+    ----------
+    info_type : str
+        Type of information to retrieve about loompy
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_loompy_info", "arguments": {"info_type": info_type}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_loompy_info"]

tooluniverse/tools/get_mageck_info.py

@@ -0,0 +1,46 @@
+"""
+get_mageck_info
+
+Get comprehensive information about MAGeCK – CRISPR screen analysis toolkit
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def get_mageck_info(
+    info_type: str,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Get comprehensive information about MAGeCK – CRISPR screen analysis toolkit
+
+    Parameters
+    ----------
+    info_type : str
+        Type of information to retrieve about MAGeCK
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "get_mageck_info", "arguments": {"info_type": info_type}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["get_mageck_info"]