BUG: construct MultiIndex identically from levels/labels when concatting

closes pandas-dev#15622
closes pandas-dev#15687
closes pandas-dev#14015
closes pandas-dev#13431

Author: jreback

asv_bench/benchmarks/timeseries.py

@@ -292,7 +292,10 @@ def setup(self):
         self.rng3 = date_range(start='1/1/2000', periods=1500000, freq='S')
         self.ts3 = Series(1, index=self.rng3)
 
-    def time_sort_index(self):
+    def time_sort_index_monotonic(self):
+        self.ts2.sort_index()
+
+    def time_sort_index_non_monotonic(self):
         self.ts.sort_index()
 
     def time_timeseries_slice_minutely(self):

doc/source/whatsnew/v0.20.0.txt

@@ -623,6 +623,78 @@ If indicated, a deprecation warning will be issued if you reference that module.
     "pandas._hash", "pandas.tools.libhash", ""
     "pandas._window", "pandas.core.libwindow", ""
 
+.. _whatsnew_0200.api_breaking.sort_index:
+
+DataFrame.sort_index changes
+^^^^^^^^^^^^^^^^^^^^^^^^^^^^
+
+In certain cases, calling ``.sort_index()`` on a MultiIndexed DataFrame would return the *same* DataFrame without seeming to sort.
+This would happen with a ``lexsorted``, but non-montonic levels. (:issue:`15622`, :issue:`15687`, :issue:`14015`, :issue:`13431`)
+
+This is UNCHANGED between versions, but showing for illustration purposes:
+
+.. ipython:: python
+
+    df = DataFrame(np.arange(6), columns=['value'], index=MultiIndex.from_product([list('BA'), range(3)]))
+    df
+
+.. ipython:: python
+
+    df.index.is_lexsorted()
+    df.index.is_monotonic
+
+Sorting works as expected
+
+.. ipython:: python
+
+    df.sort_index()
+
+.. ipython:: python
+
+    df.sort_index().index.is_lexsorted()
+    df.sort_index().index.is_monotonic
+
+However, this example, which has a monotonic level, doesn't behave as desired.
+
+.. ipython:: python
+   df = pd.DataFrame({'value': [1, 2, 3, 4]},
+                      index=pd.MultiIndex(levels=[['a', 'b'], ['bb', 'aa']],
+                                         labels=[[0, 0, 1, 1], [0, 1, 0, 1]]))
+
+Previous Behavior:
+
+.. ipython:: python
+
+   In [11]: df.sort_index()
+   Out[11]:
+         value
+   a bb      1
+     aa      2
+   b bb      3
+     aa      4
+
+   In [14]: df.sort_index().index.is_lexsorted()
+   Out[14]: True
+
+   In [15]: df.sort_index().index.is_monotonic
+   Out[15]: False
+
+New Behavior:
+
+.. ipython:: python
+
+   df.sort_index()
+   df.sort_index().index.is_lexsorted()
+   df.sort_index().index.is_monotonic
+
+Previous Behavior:
+
+.. code-block:: ipython
+
+New Behavior:
+
+.. ipython:: python
+
 
 .. _whatsnew_0200.api_breaking.groupby_describe:
 
@@ -785,7 +857,7 @@ Performance Improvements
 - Improved performance of ``.rank()`` for categorical data (:issue:`15498`)
 - Improved performance when using ``.unstack()`` (:issue:`15503`)
 - Improved performance of merge/join on ``category`` columns (:issue:`10409`)
-
+- Improved performance of ``Series.sort_index()`` with a monotonic index (:issue:`15694`)
 
 .. _whatsnew_0200.bug_fixes:
 

pandas/core/frame.py

@@ -3365,6 +3365,10 @@ def sort(self, columns=None, axis=0, ascending=True, inplace=False,
     def sort_index(self, axis=0, level=None, ascending=True, inplace=False,
                    kind='quicksort', na_position='last', sort_remaining=True,
                    by=None):
+
+        # TODO: this can be combined with Series.sort_index impl as
+        # almost identical
+
         inplace = validate_bool_kwarg(inplace, 'inplace')
         # 10726
         if by is not None:
@@ -3378,8 +3382,7 @@ def sort_index(self, axis=0, level=None, ascending=True, inplace=False,
         axis = self._get_axis_number(axis)
         labels = self._get_axis(axis)
 
-        # sort by the index
-        if level is not None:
+        if level:
 
             new_axis, indexer = labels.sortlevel(level, ascending=ascending,
                                                  sort_remaining=sort_remaining)
@@ -3389,17 +3392,15 @@ def sort_index(self, axis=0, level=None, ascending=True, inplace=False,
 
             # make sure that the axis is lexsorted to start
             # if not we need to reconstruct to get the correct indexer
-            if not labels.is_lexsorted():
-                labels = MultiIndex.from_tuples(labels.values)
+            labels = labels._reconstruct(sort=True)
 
             indexer = lexsort_indexer(labels.labels, orders=ascending,
                                       na_position=na_position)
         else:
             from pandas.core.sorting import nargsort
 
-            # GH11080 - Check monotonic-ness before sort an index
-            # if monotonic (already sorted), return None or copy() according
-            # to 'inplace'
+            # Check monotonic-ness before sort an index
+            # GH11080
             if ((ascending and labels.is_monotonic_increasing) or
                     (not ascending and labels.is_monotonic_decreasing)):
                 if inplace:
@@ -3410,8 +3411,9 @@ def sort_index(self, axis=0, level=None, ascending=True, inplace=False,
             indexer = nargsort(labels, kind=kind, ascending=ascending,
                                na_position=na_position)
 
+        baxis = self._get_block_manager_axis(axis)
         new_data = self._data.take(indexer,
-                                   axis=self._get_block_manager_axis(axis),
+                                   axis=baxis,
                                    convert=False, verify=False)
 
         if inplace:

pandas/core/groupby.py

@@ -1808,6 +1808,13 @@ def get_group_levels(self):
         'ohlc': lambda *args: ['open', 'high', 'low', 'close']
     }
 
+    def _is_builtin_func(self, arg):
+        """
+        if we define an builtin function for this argument, return it,
+        otherwise return the arg
+        """
+        return SelectionMixin._builtin_table.get(arg, arg)
+
     def _get_cython_function(self, kind, how, values, is_numeric):
 
         dtype_str = values.dtype.name
@@ -2033,7 +2040,7 @@ def _aggregate_series_fast(self, obj, func):
         # avoids object / Series creation overhead
         dummy = obj._get_values(slice(None, 0)).to_dense()
         indexer = get_group_index_sorter(group_index, ngroups)
-        obj = obj.take(indexer, convert=False)
+        obj = obj.take(indexer, convert=False).to_dense()
         group_index = algorithms.take_nd(
             group_index, indexer, allow_fill=False)
         grouper = lib.SeriesGrouper(obj, func, group_index, ngroups,

pandas/core/reshape.py

@@ -22,8 +22,8 @@
 from pandas.sparse.libsparse import IntIndex
 
 from pandas.core.categorical import Categorical, _factorize_from_iterable
-from pandas.core.sorting import (get_group_index, compress_group_index,
-                                 decons_obs_group_ids)
+from pandas.core.sorting import (get_group_index, get_compressed_ids,
+                                 compress_group_index, decons_obs_group_ids)
 
 import pandas.core.algorithms as algos
 from pandas._libs import algos as _algos, reshape as _reshape
@@ -494,11 +494,6 @@ def _unstack_frame(obj, level, fill_value=None):
         return unstacker.get_result()
 
 
-def get_compressed_ids(labels, sizes):
-    ids = get_group_index(labels, sizes, sort=True, xnull=False)
-    return compress_group_index(ids, sort=True)
-
-
 def stack(frame, level=-1, dropna=True):
     """
     Convert DataFrame to Series with multi-level Index. Columns become the

pandas/core/series.py

@@ -1756,17 +1756,31 @@ def _try_kind_sort(arr):
     def sort_index(self, axis=0, level=None, ascending=True, inplace=False,
                    kind='quicksort', na_position='last', sort_remaining=True):
 
+        # TODO: this can be combined with DataFrame.sort_index impl as
+        # almost identical
         inplace = validate_bool_kwarg(inplace, 'inplace')
         axis = self._get_axis_number(axis)
         index = self.index
-        if level is not None:
+
+        if level:
             new_index, indexer = index.sortlevel(level, ascending=ascending,
                                                  sort_remaining=sort_remaining)
         elif isinstance(index, MultiIndex):
             from pandas.core.sorting import lexsort_indexer
-            indexer = lexsort_indexer(index.labels, orders=ascending)
+            labels = index._reconstruct(sort=True)
+            indexer = lexsort_indexer(labels.labels, orders=ascending)
         else:
             from pandas.core.sorting import nargsort
+
+            # Check monotonic-ness before sort an index
+            # GH11080
+            if ((ascending and index.is_monotonic_increasing) or
+                    (not ascending and index.is_monotonic_decreasing)):
+                if inplace:
+                    return
+                else:
+                    return self.copy()
+
             indexer = nargsort(index, kind=kind, ascending=ascending,
                                na_position=na_position)
 

pandas/core/sorting.py

@@ -93,6 +93,11 @@ def maybe_lift(lab, size):  # pormote nan values
     return loop(list(labels), list(shape))
 
 
+def get_compressed_ids(labels, sizes):
+    ids = get_group_index(labels, sizes, sort=True, xnull=False)
+    return compress_group_index(ids, sort=True)
+
+
 def is_int64_overflow_possible(shape):
     the_prod = long(1)
     for x in shape:

pandas/indexes/multi.py

@@ -1175,9 +1175,53 @@ def from_product(cls, iterables, sortorder=None, names=None):
 
         labels, levels = _factorize_from_iterables(iterables)
         labels = cartesian_product(labels)
+        return MultiIndex(levels, labels, sortorder=sortorder, names=names)
 
-        return MultiIndex(levels=levels, labels=labels, sortorder=sortorder,
-                          names=names)
+    def _reconstruct(self, sort=False):
+        """
+        reconstruct the MultiIndex
+
+        The MultiIndex will have the same outward appearance (e.g. values)
+        and will also .equals()
+
+        Parameters
+        ----------
+        sort: boolean, default False
+            monotonically sort the levels
+
+        Returns
+        -------
+        MultiIndex
+
+        """
+        if sort:
+
+            if self.is_monotonic:
+                return self
+
+            new_levels = []
+            new_labels = []
+            for lev, lab in zip(self.levels, self.labels):
+
+                if lev.is_monotonic:
+                    new_levels.append(lev)
+                    new_labels.append(lab)
+                    continue
+
+                # indexer to reorder the levels
+                indexer = lev.argsort()
+                lev = lev.take(indexer)
+
+                # indexer to reorder the labels
+                ri = lib.get_reverse_indexer(indexer, len(indexer))
+                lab = algos.take_1d(ri, lab)
+
+                new_levels.append(lev)
+                new_labels.append(lab)
+
+        return MultiIndex(new_levels, new_labels,
+                          names=self.names, sortorder=self.sortorder,
+                          verify_integrity=False)
 
     @property
     def nlevels(self):

pandas/tests/indexes/test_multi.py

@@ -2411,6 +2411,51 @@ def test_is_monotonic(self):
 
         self.assertFalse(i.is_monotonic)
 
+    def test_reconstruct(self):
+
+        # starts off lexsorted & monotonic
+        mi = MultiIndex.from_arrays([
+            ['A', 'A', 'B', 'B', 'B'], [1, 2, 1, 2, 3]
+        ])
+        assert mi.is_lexsorted()
+        assert mi.is_monotonic
+
+        recons = mi._reconstruct(sort=True)
+        assert recons.is_lexsorted()
+        assert recons.is_monotonic
+        assert mi is recons
+
+        assert mi.equals(recons)
+        assert Index(mi.values).equals(Index(recons.values))
+
+        # cannot convert to lexsorted
+        mi = pd.MultiIndex.from_tuples([('z', 'a'), ('x', 'a'), ('y', 'b'),
+                                        ('x', 'b'), ('y', 'a'), ('z', 'b')],
+                                       names=['one', 'two'])
+        assert not mi.is_lexsorted()
+        assert not mi.is_monotonic
+
+        recons = mi._reconstruct(sort=True)
+        assert not recons.is_lexsorted()
+        assert not recons.is_monotonic
+
+        assert mi.equals(recons)
+        assert Index(mi.values).equals(Index(recons.values))
+
+        # cannot convert to lexsorted
+        mi = MultiIndex(levels=[['b', 'd', 'a'], [1, 2, 3]],
+                        labels=[[0, 1, 0, 2], [2, 0, 0, 1]],
+                        names=['col1', 'col2'])
+        assert not mi.is_lexsorted()
+        assert not mi.is_monotonic
+
+        recons = mi._reconstruct(sort=True)
+        assert not recons.is_lexsorted()
+        assert not recons.is_monotonic
+
+        assert mi.equals(recons)
+        assert Index(mi.values).equals(Index(recons.values))
+
     def test_isin(self):
         values = [('foo', 2), ('bar', 3), ('quux', 4)]
 

pandas/tests/series/test_analytics.py

@@ -1632,7 +1632,7 @@ def test_unstack(self):
                                labels=[[0, 1, 2, 0, 1, 2], [0, 1, 0, 1, 0, 1]])
         expected = DataFrame({'bar': s.values},
                              index=exp_index).sort_index(level=0)
-        unstacked = s.unstack(0)
+        unstacked = s.unstack(0).sort_index()
         assert_frame_equal(unstacked, expected)
 
         # GH5873