diff --git a/package/MDAnalysis/analysis/density.py b/package/MDAnalysis/analysis/density.py index 20274d906c4..c0a038ae410 100644 --- a/package/MDAnalysis/analysis/density.py +++ b/package/MDAnalysis/analysis/density.py @@ -80,7 +80,7 @@ :members: :inherited-members: -.. versionchanged:: 0.15.0 +.. deprecated:: 0.15.0 The "permissive" flag is not used anymore (and effectively defaults to True); it will be completely removed in 0.16.0. diff --git a/package/MDAnalysis/coordinates/core.py b/package/MDAnalysis/coordinates/core.py index b0e574615bc..166cc58c621 100644 --- a/package/MDAnalysis/coordinates/core.py +++ b/package/MDAnalysis/coordinates/core.py @@ -108,7 +108,7 @@ def reader(filename, **kwargs): :class:`~CRD.CRDReader`, and :class:`~PDB.PDBReader`, :class:`~GRO.GROReader`, - .. versionchanged:: 0.15.0 + .. deprecated:: 0.15.0 The "permissive" flag is not used anymore (and effectively defaults to True); it will be completely removed in 0.16.0. """ diff --git a/package/MDAnalysis/core/AtomGroup.py b/package/MDAnalysis/core/AtomGroup.py index 95adaac5610..08721bd5eb8 100644 --- a/package/MDAnalysis/core/AtomGroup.py +++ b/package/MDAnalysis/core/AtomGroup.py @@ -4230,7 +4230,7 @@ def __init__(self, *args, **kwargs): .. versionchanged:: 0.11.0 Added the *is_anchor* and *anchor_name* keywords for finer behavior control when unpickling instances of :class:`MDAnalysis.core.AtomGroup.AtomGroup`. - .. versionchanged:: 0.15.0 + .. deprecated:: 0.15.0 The "permissive" flag is not used anymore (and effectively defaults to True); it will be completely removed in 0.16.0. """ @@ -4811,7 +4811,7 @@ def load_new(self, filename, **kwargs): its specialized file format reader, which typically has more features than the :class:`~MDAnalysis.coordinates.base.ChainReader`. - .. versionchanged:: 0.15.0 + .. deprecated:: 0.15.0 The "permissive" flag is not used anymore (and effectively defaults to True); it will be completely removed in 0.16.0. """ diff --git a/package/MDAnalysis/core/__init__.py b/package/MDAnalysis/core/__init__.py index 5fd6f2d778b..c053ccdb10c 100644 --- a/package/MDAnalysis/core/__init__.py +++ b/package/MDAnalysis/core/__init__.py @@ -386,7 +386,7 @@ def __doc__(self): 'Bio.PDB': False, 'biopython': False, False: False, }, """ - This flag is not used anymore and will be removed in 0.16.0. + This flag is deprecated and will be removed in 0.16.0. """ ), _Flag(