Typos

src/python/espressomd/cluster_analysis.py

@@ -29,7 +29,7 @@ class Cluster(ScriptInterfaceHelper):
         Returns list of particle ids in the cluster
 
     particles():
-        Returns an instance of ParticleSlice containing the paritlces in the cluster
+        Returns an instance of ParticleSlice containing the particles in the cluster
 
     size():
         Returns the number of particles in the cluster
@@ -42,9 +42,9 @@ class Cluster(ScriptInterfaceHelper):
 
     fractal_dimension(dr=None):
         estimates the cluster's fractal dimension by fitting the number of particles
-        :math:`n` in spheres of growing radius around the cetner of mass
+        :math:`n` in spheres of growing radius around the center of mass
         to :math:`c*r_g^d`, where :math:`r_g` is the radius of gyration of the particles
-        witin the sphere, and :math:`d` is the fractal dimensoin.
+        within the sphere, and :math:`d` is the fractal dimension.
         `dr`: Minimum increment for the radius of the spheres.
         Return value: (fractal_dimension, mean_square_residual)
     """
@@ -61,7 +61,7 @@ def particles(self):
 @script_interface_register
 class ClusterStructure(ScriptInterfaceHelper):
 
-    """Cluster structure of a simulation system, and access to cluster anaylsis
+    """Cluster structure of a simulation system, and access to cluster analysis
 
     Attributes
     ----------
@@ -70,9 +70,11 @@ class ClusterStructure(ScriptInterfaceHelper):
 
     clusters: behaves like a read-only dictionary
         Access to individual clusters in the cluster structure either via
-        cluster[i], wher i is a (non-consecutive) integer cluster id
-        or via iteration:
-        for pair in clusters:
+        cluster[i], where i is a (non-consecutive) integer cluster id
+        or via iteration::
+
+            for pair in clusters:
+
         where pair contains the numeric id and the corresponding cluster object.
 
     """
@@ -92,7 +94,7 @@ def run_for_all_pairs(self):
 
     def run_for_bonded_particles(self):
         """
-        Runts the cluster analysis, considering only pairs of particles connected ba a pair-bond.
+        Runs the cluster analysis, considering only pairs of particles connected by a pair-bond.
 
         """
         return self.call_method("run_for_bonded_particles")
@@ -134,7 +136,7 @@ class Clusters:
 
        * Number of clusters: len(clusters)
        * Access a cluster via its id: clusters[id]
-       * Iterate over clusters:::
+       * Iterate over clusters::
 
             for c in clusters:
 

src/python/espressomd/collision_detection.pyx

@@ -48,7 +48,7 @@ class CollisionDetection(ScriptInterfaceHelper):
     # Do not allow setting of individual attributes
     def __setattr__(self, *args, **kwargs):
         raise Exception(
-            "Please et all parameters at once via collision_detection.set_params()")
+            "Please set all parameters at once via collision_detection.set_params()")
 
     # Override to call validate after parameter update
     def set_params(self, **kwargs):
@@ -76,13 +76,13 @@ class CollisionDetection(ScriptInterfaceHelper):
                Particle type of the virtual sites being created on collision (virtual sites based modes)
 
         part_type_to_be_glued : :obj:`int`
-               particle type for "glue_to_surface|" mode. See user guide.
+               particle type for "glue_to_surface" mode. See user guide.
 
         part_type_to_attach_vs_to : :obj:`int`
-               particle type for "glue_to_surface|" mode. See user guide.
+               particle type for "glue_to_surface" mode. See user guide.
 
         part_type_after_glueing : :obj:`int`
-               particle type for "glue_to_surface|" mode. See user guide.
+               particle type for "glue_to_surface" mode. See user guide.
 
         distance_glued_particle_to_vs : :obj:`float`
                Distance for "glue_to_surface" mode. See user guide.
@@ -103,7 +103,7 @@ class CollisionDetection(ScriptInterfaceHelper):
         # Completeness of parameter set
         if not (set(kwargs.keys()) == set(self._params_for_mode(kwargs["mode"]))):
             raise Exception("Parameter set does not match mode. ", kwargs[
-                            "mode"], "requries ", self._params_for_mode(kwargs["mode"]))
+                            "mode"], "requires ", self._params_for_mode(kwargs["mode"]))
 
         # Mode
         kwargs["mode"] = self._int_mode[kwargs["mode"]]
@@ -118,7 +118,7 @@ class CollisionDetection(ScriptInterfaceHelper):
         handle_errors("Validation of collision detection failed")
 
     def get_parameter(self, name):
-        #"""Gets a single parameter from the collision detection."""
+        """Gets a single parameter from the collision detection."""
 
         res = super().get_parameter(name)
         return self._convert_param(name, res)

src/python/espressomd/comfixed.py

@@ -31,7 +31,7 @@ class ComFixed(ScriptInterfaceHelper):
     Parameters
     ----------
     types : array_like
-        List of types of which the center of mass
+        List of types for which the center of mass
         should be fixed.
     """
 

src/python/espressomd/interactions.pyx

@@ -1829,9 +1829,9 @@ cdef class BondedInteraction:
     """
     Base class for bonded interactions.
 
-    Either called with an interaction id, in which case, the interaction
-    will represent the bonded interaction as it is defined in Espresso core
-    Or called with keyword arguments describing a new interaction.
+    Either called with an interaction id, in which case the interaction
+    will represent the bonded interaction as it is defined in Espresso core,
+    or called with keyword arguments describing a new interaction.
 
     """
 
@@ -3428,7 +3428,7 @@ class BondedInteractions:
                 yield self[i]
 
     def add(self, bonded_ia):
-        """Add a bonded ia to the simulation>"""
+        """Add a bonded ia to the simulation"""
         self[bonded_ia_params.size()] = bonded_ia
 
     def __getstate__(self):

src/python/espressomd/pair_criteria.py

@@ -22,7 +22,7 @@ class _PairCriterion(ScriptInterfaceHelper):
 
     def decide(self, p1, p2):
         """Makes a decision based on the two particles specified.
-           p2,p2 : Instances of ParticleHandle or integers containing the particle id.
+           p1,p2 : Instances of ParticleHandle or integers containing the particle id.
         """
         id1 = None
         id2 = None

src/python/espressomd/particle_data.pyx

@@ -152,7 +152,7 @@ cdef class ParticleHandle:
         def __set__(self, _pos):
             cdef double mypos[3]
             check_type_or_throw_except(
-                _pos, 3, float, "Postion must be 3 floats")
+                _pos, 3, float, "Position must be 3 floats")
             for i in range(3):
                 mypos[i] = _pos[i]
             if place_particle(self._id, mypos) == -1:
@@ -1856,7 +1856,7 @@ Set quat and scalar dipole moment (dipm) instead.")
         # done here. the code is from the pos:property of ParticleHandle
         cdef double mypos[3]
         check_type_or_throw_except(
-            P["pos"], 3, float, "Postion must be 3 floats.")
+            P["pos"], 3, float, "Position must be 3 floats.")
         for i in range(3):
             mypos[i] = P["pos"][i]
         if place_particle(P["id"], mypos) == -1:

src/python/espressomd/shapes.py

@@ -258,7 +258,7 @@ class Wall(Shape, ScriptInterfaceHelper):
 class SimplePore(Shape, ScriptInterfaceHelper):
 
     """
-    Two parallel infinite planes, and a cylindrical orfice connecting them.
+    Two parallel infinite planes, and a cylindrical orifice connecting them.
     The cylinder and the planes are connected by torus segments with an
     adjustable radius.