Source code for MDAnalysis.exceptions

# -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
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# MDAnalysis --- https://www.mdanalysis.org
# Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
# (see the file AUTHORS for the full list of names)
#
# Released under the GNU Public Licence, v2 or any higher version
#
# Please cite your use of MDAnalysis in published work:
#
# R. J. Gowers, M. Linke, J. Barnoud, T. J. E. Reddy, M. N. Melo, S. L. Seyler,
# D. L. Dotson, J. Domanski, S. Buchoux, I. M. Kenney, and O. Beckstein.
# MDAnalysis: A Python package for the rapid analysis of molecular dynamics
# simulations. In S. Benthall and S. Rostrup editors, Proceedings of the 15th
# Python in Science Conference, pages 102-109, Austin, TX, 2016. SciPy.
# doi: 10.25080/majora-629e541a-00e
#
# N. Michaud-Agrawal, E. J. Denning, T. B. Woolf, and O. Beckstein.
# MDAnalysis: A Toolkit for the Analysis of Molecular Dynamics Simulations.
# J. Comput. Chem. 32 (2011), 2319--2327, doi:10.1002/jcc.21787
#

"""
Custom exceptions and warnings --- :mod:`MDAnalysis.exceptions`
===============================================================

"""


class SelectionError(Exception):
    """Raised when a atom selection failed."""


class NoDataError(ValueError, AttributeError):
    """Raised when empty input is not allowed or required data are missing.

    .. versionchanged:: 1.0.0
        Now a subclass of AttributeError as well as ValueError
    """


class ApplicationError(OSError):
    """Raised when an external application failed.

    The error code is specific for the application.

    .. versionadded:: 0.7.7
    """


class SelectionWarning(Warning):
    """Warning indicating a possible problem with a selection."""


class MissingDataWarning(Warning):
    """Warning indicating is that required data are missing."""


class ConversionWarning(Warning):
    """Warning indicating a problem with converting between units."""


class FileFormatWarning(Warning):
    """Warning indicating possible problems with a file format."""


class StreamWarning(Warning):
    """Warning indicating a possible problem with a stream.

    :exc:`StreamWarning` is used when streams are substituted for simple access
    by filename (see in particular
    :class:`~MDAnalysis.lib.util.NamedStream`). This does not work everywhere
    in MDAnalysis (yet).
    """


class DuplicateWarning(UserWarning):
    """Warning indicating possible problems arising from an
    :class:`~MDAnalysis.core.groups.AtomGroup` /
    :class:`~MDAnalysis.core.groups.ResidueGroup` /
    :class:`~MDAnalysis.core.groups.SegmentGroup` containing duplicate
    :class:`Atoms<MDAnalysis.core.groups.Atom>` /
    :class:`Residues<MDAnalysis.core.groups.Residue>` /
    :class:`Segments<MDAnalysis.core.groups.Segment>`.


    .. versionadded:: 0.19.0
    """