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authorDongHun Kwak <dh0128.kwak@samsung.com>2020-12-31 09:32:58 +0900
committerDongHun Kwak <dh0128.kwak@samsung.com>2020-12-31 09:32:58 +0900
commitdafde1312a74de106e0e114de78b9ae5f52f0b78 (patch)
tree07b322b6dfbfa69110f399218d35d53c167fcaf7
parent546f3e50ef3710ae2fc394774c63eefc7801ca0f (diff)
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Imported Upstream version 1.15.1upstream/1.15.1
-rw-r--r--doc/changelog/1.15.1-changelog.rst44
-rw-r--r--doc/release/1.15.1-notes.rst74
-rw-r--r--doc/source/conf.py9
-rw-r--r--doc/source/release.rst2
-rw-r--r--numpy/__init__.py5
-rw-r--r--numpy/core/_internal.py4
-rw-r--r--numpy/core/einsumfunc.py4
-rw-r--r--numpy/core/records.py4
-rw-r--r--numpy/core/src/multiarray/arraytypes.c.src2
-rw-r--r--numpy/core/src/multiarray/buffer.c56
-rw-r--r--numpy/core/src/multiarray/ctors.c9
-rw-r--r--numpy/core/src/multiarray/descriptor.c2
-rw-r--r--numpy/core/src/multiarray/dragon4.c51
-rw-r--r--numpy/core/src/multiarray/dragon4.h7
-rw-r--r--numpy/core/src/multiarray/multiarraymodule.c2
-rw-r--r--numpy/core/src/umath/loops.c.src8
-rw-r--r--numpy/core/tests/test_datetime.py4
-rw-r--r--numpy/core/tests/test_deprecations.py6
-rw-r--r--numpy/core/tests/test_dtype.py72
-rw-r--r--numpy/core/tests/test_multiarray.py124
-rw-r--r--numpy/core/tests/test_regression.py7
-rw-r--r--numpy/core/tests/test_scalarbuffer.py27
-rw-r--r--numpy/core/tests/test_umath.py6
-rwxr-xr-xnumpy/f2py/crackfortran.py2
-rw-r--r--numpy/lib/_datasource.py8
-rw-r--r--numpy/lib/arraysetops.py24
-rw-r--r--numpy/lib/histograms.py32
-rw-r--r--numpy/lib/tests/test__datasource.py27
-rw-r--r--numpy/lib/tests/test_arraysetops.py25
-rw-r--r--numpy/lib/tests/test_histograms.py14
-rw-r--r--numpy/linalg/linalg.py20
-rw-r--r--numpy/linalg/tests/test_linalg.py131
-rw-r--r--numpy/ma/tests/test_core.py11
-rw-r--r--numpy/random/setup.py3
-rw-r--r--numpy/testing/_private/utils.py21
-rw-r--r--pavement.py4
-rwxr-xr-xsetup.py9
-rwxr-xr-xtools/cythonize.py48
38 files changed, 658 insertions, 250 deletions
diff --git a/doc/changelog/1.15.1-changelog.rst b/doc/changelog/1.15.1-changelog.rst
new file mode 100644
index 000000000..42ba67c2b
--- /dev/null
+++ b/doc/changelog/1.15.1-changelog.rst
@@ -0,0 +1,44 @@
+
+Contributors
+============
+
+A total of 7 people contributed to this release. People with a "+" by their
+names contributed a patch for the first time.
+
+* Charles Harris
+* Chris Billington
+* Elliott Sales de Andrade +
+* Eric Wieser
+* Jeremy Manning +
+* Matti Picus
+* Ralf Gommers
+
+Pull requests merged
+====================
+
+A total of 24 pull requests were merged for this release.
+
+* `#11647 <https://github.com/numpy/numpy/pull/11647>`__: MAINT: Filter Cython warnings in ``__init__.py``
+* `#11648 <https://github.com/numpy/numpy/pull/11648>`__: BUG: Fix doc source links to unwrap decorators
+* `#11657 <https://github.com/numpy/numpy/pull/11657>`__: BUG: Ensure singleton dimensions are not dropped when converting...
+* `#11661 <https://github.com/numpy/numpy/pull/11661>`__: BUG: Warn on Nan in minimum,maximum for scalars
+* `#11665 <https://github.com/numpy/numpy/pull/11665>`__: BUG: cython sometimes emits invalid gcc attribute
+* `#11682 <https://github.com/numpy/numpy/pull/11682>`__: BUG: Fix regression in void_getitem
+* `#11698 <https://github.com/numpy/numpy/pull/11698>`__: BUG: Make matrix_power again work for object arrays.
+* `#11700 <https://github.com/numpy/numpy/pull/11700>`__: BUG: Add missing PyErr_NoMemory after failing malloc
+* `#11719 <https://github.com/numpy/numpy/pull/11719>`__: BUG: Fix undefined functions on big-endian systems.
+* `#11720 <https://github.com/numpy/numpy/pull/11720>`__: MAINT: Make einsum optimize default to False.
+* `#11746 <https://github.com/numpy/numpy/pull/11746>`__: BUG: Fix regression in loadtxt for bz2 text files in Python 2.
+* `#11757 <https://github.com/numpy/numpy/pull/11757>`__: BUG: Revert use of `console_scripts`.
+* `#11758 <https://github.com/numpy/numpy/pull/11758>`__: BUG: Fix Fortran kind detection for aarch64 & s390x.
+* `#11759 <https://github.com/numpy/numpy/pull/11759>`__: BUG: Fix printing of longdouble on ppc64le.
+* `#11760 <https://github.com/numpy/numpy/pull/11760>`__: BUG: Fixes for unicode field names in Python 2
+* `#11761 <https://github.com/numpy/numpy/pull/11761>`__: BUG: Increase required cython version on python 3.7
+* `#11763 <https://github.com/numpy/numpy/pull/11763>`__: BUG: check return value of _buffer_format_string
+* `#11775 <https://github.com/numpy/numpy/pull/11775>`__: MAINT: Make assert_array_compare more generic.
+* `#11776 <https://github.com/numpy/numpy/pull/11776>`__: TST: Fix urlopen stubbing.
+* `#11777 <https://github.com/numpy/numpy/pull/11777>`__: BUG: Fix regression in intersect1d.
+* `#11779 <https://github.com/numpy/numpy/pull/11779>`__: BUG: Fix test sensitive to platform byte order.
+* `#11781 <https://github.com/numpy/numpy/pull/11781>`__: BUG: Avoid signed overflow in histogram
+* `#11785 <https://github.com/numpy/numpy/pull/11785>`__: BUG: Fix pickle and memoryview for datetime64, timedelta64 scalars
+* `#11786 <https://github.com/numpy/numpy/pull/11786>`__: BUG: Deprecation triggers segfault
diff --git a/doc/release/1.15.1-notes.rst b/doc/release/1.15.1-notes.rst
new file mode 100644
index 000000000..ddb83303c
--- /dev/null
+++ b/doc/release/1.15.1-notes.rst
@@ -0,0 +1,74 @@
+==========================
+NumPy 1.15.1 Release Notes
+==========================
+
+This is a bugfix release for bugs and regressions reported following the 1.15.0
+release.
+
+* The annoying but harmless RuntimeWarning that "numpy.dtype size changed" has
+ been suppressed. The long standing suppression was lost in the transition to
+ pytest.
+* The update to Cython 0.28.3 exposed a problematic use of a gcc attribute used
+ to prefer code size over speed in module initialization, possibly resulting in
+ incorrect compiled code. This has been fixed in latest Cython but has been
+ disabled here for safety.
+* Support for big-endian and ARMv8 architectures has been improved.
+
+The Python versions supported by this release are 2.7, 3.4-3.7. The wheels are
+linked with OpenBLAS v0.3.0, which should fix some of the linalg problems
+reported for NumPy 1.14.
+
+
+Compatibility Note
+==================
+
+The NumPy 1.15.x OS X wheels released on PyPI no longer contain 32-bit
+binaries. That will also be the case in future releases. See
+`#11625 <https://github.com/numpy/numpy/issues/11625>`__ for the related
+discussion. Those needing 32-bit support should look elsewhere or build
+from source.
+
+
+Contributors
+============
+
+A total of 7 people contributed to this release. People with a "+" by their
+names contributed a patch for the first time.
+
+* Charles Harris
+* Chris Billington
+* Elliott Sales de Andrade +
+* Eric Wieser
+* Jeremy Manning +
+* Matti Picus
+* Ralf Gommers
+
+Pull requests merged
+====================
+
+A total of 24 pull requests were merged for this release.
+
+* `#11647 <https://github.com/numpy/numpy/pull/11647>`__: MAINT: Filter Cython warnings in ``__init__.py``
+* `#11648 <https://github.com/numpy/numpy/pull/11648>`__: BUG: Fix doc source links to unwrap decorators
+* `#11657 <https://github.com/numpy/numpy/pull/11657>`__: BUG: Ensure singleton dimensions are not dropped when converting...
+* `#11661 <https://github.com/numpy/numpy/pull/11661>`__: BUG: Warn on Nan in minimum,maximum for scalars
+* `#11665 <https://github.com/numpy/numpy/pull/11665>`__: BUG: cython sometimes emits invalid gcc attribute
+* `#11682 <https://github.com/numpy/numpy/pull/11682>`__: BUG: Fix regression in void_getitem
+* `#11698 <https://github.com/numpy/numpy/pull/11698>`__: BUG: Make matrix_power again work for object arrays.
+* `#11700 <https://github.com/numpy/numpy/pull/11700>`__: BUG: Add missing PyErr_NoMemory after failing malloc
+* `#11719 <https://github.com/numpy/numpy/pull/11719>`__: BUG: Fix undefined functions on big-endian systems.
+* `#11720 <https://github.com/numpy/numpy/pull/11720>`__: MAINT: Make einsum optimize default to False.
+* `#11746 <https://github.com/numpy/numpy/pull/11746>`__: BUG: Fix regression in loadtxt for bz2 text files in Python 2.
+* `#11757 <https://github.com/numpy/numpy/pull/11757>`__: BUG: Revert use of `console_scripts`.
+* `#11758 <https://github.com/numpy/numpy/pull/11758>`__: BUG: Fix Fortran kind detection for aarch64 & s390x.
+* `#11759 <https://github.com/numpy/numpy/pull/11759>`__: BUG: Fix printing of longdouble on ppc64le.
+* `#11760 <https://github.com/numpy/numpy/pull/11760>`__: BUG: Fixes for unicode field names in Python 2
+* `#11761 <https://github.com/numpy/numpy/pull/11761>`__: BUG: Increase required cython version on python 3.7
+* `#11763 <https://github.com/numpy/numpy/pull/11763>`__: BUG: check return value of _buffer_format_string
+* `#11775 <https://github.com/numpy/numpy/pull/11775>`__: MAINT: Make assert_array_compare more generic.
+* `#11776 <https://github.com/numpy/numpy/pull/11776>`__: TST: Fix urlopen stubbing.
+* `#11777 <https://github.com/numpy/numpy/pull/11777>`__: BUG: Fix regression in intersect1d.
+* `#11779 <https://github.com/numpy/numpy/pull/11779>`__: BUG: Fix test sensitive to platform byte order.
+* `#11781 <https://github.com/numpy/numpy/pull/11781>`__: BUG: Avoid signed overflow in histogram
+* `#11785 <https://github.com/numpy/numpy/pull/11785>`__: BUG: Fix pickle and memoryview for datetime64, timedelta64 scalars
+* `#11786 <https://github.com/numpy/numpy/pull/11786>`__: BUG: Deprecation triggers segfault
diff --git a/doc/source/conf.py b/doc/source/conf.py
index 1472f5155..5ba0cfe63 100644
--- a/doc/source/conf.py
+++ b/doc/source/conf.py
@@ -321,6 +321,15 @@ def linkcode_resolve(domain, info):
except Exception:
return None
+ # strip decorators, which would resolve to the source of the decorator
+ # possibly an upstream bug in getsourcefile, bpo-1764286
+ try:
+ unwrap = inspect.unwrap
+ except AttributeError:
+ pass
+ else:
+ obj = unwrap(obj)
+
try:
fn = inspect.getsourcefile(obj)
except Exception:
diff --git a/doc/source/release.rst b/doc/source/release.rst
index 9d7169b73..fb20fce92 100644
--- a/doc/source/release.rst
+++ b/doc/source/release.rst
@@ -2,6 +2,7 @@
Release Notes
*************
+.. include:: ../release/1.15.1-notes.rst
.. include:: ../release/1.15.0-notes.rst
.. include:: ../release/1.14.5-notes.rst
.. include:: ../release/1.14.4-notes.rst
@@ -39,3 +40,4 @@ Release Notes
.. include:: ../release/1.5.0-notes.rst
.. include:: ../release/1.4.0-notes.rst
.. include:: ../release/1.3.0-notes.rst
+
diff --git a/numpy/__init__.py b/numpy/__init__.py
index d250ed5ac..1f60f074c 100644
--- a/numpy/__init__.py
+++ b/numpy/__init__.py
@@ -181,6 +181,11 @@ else:
__all__.extend(lib.__all__)
__all__.extend(['linalg', 'fft', 'random', 'ctypeslib', 'ma'])
+ # Filter out Cython harmless warnings
+ warnings.filterwarnings("ignore", message="numpy.dtype size changed")
+ warnings.filterwarnings("ignore", message="numpy.ufunc size changed")
+ warnings.filterwarnings("ignore", message="numpy.ndarray size changed")
+
# oldnumeric and numarray were removed in 1.9. In case some packages import
# but do not use them, we define them here for backward compatibility.
oldnumeric = 'removed'
diff --git a/numpy/core/_internal.py b/numpy/core/_internal.py
index 9990bacf0..e658fc514 100644
--- a/numpy/core/_internal.py
+++ b/numpy/core/_internal.py
@@ -9,7 +9,7 @@ from __future__ import division, absolute_import, print_function
import re
import sys
-from numpy.compat import basestring
+from numpy.compat import basestring, unicode
from .multiarray import dtype, array, ndarray
try:
import ctypes
@@ -294,7 +294,7 @@ def _newnames(datatype, order):
"""
oldnames = datatype.names
nameslist = list(oldnames)
- if isinstance(order, str):
+ if isinstance(order, (str, unicode)):
order = [order]
seen = set()
if isinstance(order, (list, tuple)):
diff --git a/numpy/core/einsumfunc.py b/numpy/core/einsumfunc.py
index 32c00fd8f..df2bf4a4e 100644
--- a/numpy/core/einsumfunc.py
+++ b/numpy/core/einsumfunc.py
@@ -1220,8 +1220,8 @@ def einsum(*operands, **kwargs):
"""
- # Grab non-einsum kwargs; never optimize 2-argument case.
- optimize_arg = kwargs.pop('optimize', len(operands) > 3)
+ # Grab non-einsum kwargs; do not optimize by default.
+ optimize_arg = kwargs.pop('optimize', False)
# If no optimization, run pure einsum
if optimize_arg is False:
diff --git a/numpy/core/records.py b/numpy/core/records.py
index 612d39322..a483871ba 100644
--- a/numpy/core/records.py
+++ b/numpy/core/records.py
@@ -42,7 +42,7 @@ import warnings
from . import numeric as sb
from . import numerictypes as nt
-from numpy.compat import isfileobj, bytes, long
+from numpy.compat import isfileobj, bytes, long, unicode
from .arrayprint import get_printoptions
# All of the functions allow formats to be a dtype
@@ -174,7 +174,7 @@ class format_parser(object):
if (names):
if (type(names) in [list, tuple]):
pass
- elif isinstance(names, str):
+ elif isinstance(names, (str, unicode)):
names = names.split(',')
else:
raise NameError("illegal input names %s" % repr(names))
diff --git a/numpy/core/src/multiarray/arraytypes.c.src b/numpy/core/src/multiarray/arraytypes.c.src
index b4158ec8e..d622effe6 100644
--- a/numpy/core/src/multiarray/arraytypes.c.src
+++ b/numpy/core/src/multiarray/arraytypes.c.src
@@ -733,7 +733,7 @@ VOID_getitem(void *input, void *vap)
return (PyObject *)ret;
}
- return PyBytes_FromStringAndSize(PyArray_DATA(ap), descr->elsize);
+ return PyBytes_FromStringAndSize(ip, descr->elsize);
}
diff --git a/numpy/core/src/multiarray/buffer.c b/numpy/core/src/multiarray/buffer.c
index 21dbdefd6..c8e3da8bc 100644
--- a/numpy/core/src/multiarray/buffer.c
+++ b/numpy/core/src/multiarray/buffer.c
@@ -175,6 +175,14 @@ _is_natively_aligned_at(PyArray_Descr *descr,
return 1;
}
+/*
+ * Fill in str with an appropriate PEP 3118 format string, based on
+ * descr. For structured dtypes, calls itself recursively. Each call extends
+ * str at offset then updates offset, and uses descr->byteorder, (and
+ * possibly the byte order in obj) to determine the byte-order char.
+ *
+ * Returns 0 for success, -1 for failure
+ */
static int
_buffer_format_string(PyArray_Descr *descr, _tmp_string_t *str,
PyObject* obj, Py_ssize_t *offset,
@@ -195,8 +203,8 @@ _buffer_format_string(PyArray_Descr *descr, _tmp_string_t *str,
PyObject *item, *subarray_tuple;
Py_ssize_t total_count = 1;
Py_ssize_t dim_size;
+ Py_ssize_t old_offset;
char buf[128];
- int old_offset;
int ret;
if (PyTuple_Check(descr->subarray->shape)) {
@@ -230,15 +238,15 @@ _buffer_format_string(PyArray_Descr *descr, _tmp_string_t *str,
return ret;
}
else if (PyDataType_HASFIELDS(descr)) {
- int base_offset = *offset;
+ Py_ssize_t base_offset = *offset;
_append_str(str, "T{");
for (k = 0; k < PyTuple_GET_SIZE(descr->names); ++k) {
PyObject *name, *item, *offset_obj, *tmp;
PyArray_Descr *child;
char *p;
- Py_ssize_t len;
- int new_offset;
+ Py_ssize_t len, new_offset;
+ int ret;
name = PyTuple_GET_ITEM(descr->names, k);
item = PyDict_GetItem(descr->fields, name);
@@ -266,8 +274,11 @@ _buffer_format_string(PyArray_Descr *descr, _tmp_string_t *str,
}
/* Insert child item */
- _buffer_format_string(child, str, obj, offset,
+ ret = _buffer_format_string(child, str, obj, offset,
active_byteorder);
+ if (ret < 0) {
+ return -1;
+ }
/* Insert field name */
#if defined(NPY_PY3K)
@@ -393,8 +404,8 @@ _buffer_format_string(PyArray_Descr *descr, _tmp_string_t *str,
case NPY_CFLOAT: if (_append_str(str, "Zf")) return -1; break;
case NPY_CDOUBLE: if (_append_str(str, "Zd")) return -1; break;
case NPY_CLONGDOUBLE: if (_append_str(str, "Zg")) return -1; break;
- /* XXX: datetime */
- /* XXX: timedelta */
+ /* XXX NPY_DATETIME */
+ /* XXX NPY_TIMEDELTA */
case NPY_OBJECT: if (_append_char(str, 'O')) return -1; break;
case NPY_STRING: {
char buf[128];
@@ -468,10 +479,33 @@ _buffer_info_new(PyObject *obj)
info = malloc(sizeof(_buffer_info_t));
if (info == NULL) {
+ PyErr_NoMemory();
goto fail;
}
- if (PyArray_IsScalar(obj, Generic)) {
+ if (PyArray_IsScalar(obj, Datetime) || PyArray_IsScalar(obj, Timedelta)) {
+ /*
+ * Special case datetime64 scalars to remain backward compatible.
+ * This will change in a future version.
+ * Note arrays of datetime64 and strutured arrays with datetime64
+ * fields will not hit this code path and are currently unsupported
+ * in _buffer_format_string.
+ */
+ _append_char(&fmt, 'B');
+ _append_char(&fmt, '\0');
+ info->ndim = 1;
+ info->shape = malloc(sizeof(Py_ssize_t) * 2);
+ if (info->shape == NULL) {
+ PyErr_NoMemory();
+ goto fail;
+ }
+ info->strides = info->shape + info->ndim;
+ info->shape[0] = 8;
+ info->strides[0] = 1;
+ info->format = fmt.s;
+ return info;
+ }
+ else if (PyArray_IsScalar(obj, Generic)) {
descr = PyArray_DescrFromScalar(obj);
if (descr == NULL) {
goto fail;
@@ -493,6 +527,7 @@ _buffer_info_new(PyObject *obj)
else {
info->shape = malloc(sizeof(Py_ssize_t) * PyArray_NDIM(arr) * 2 + 1);
if (info->shape == NULL) {
+ PyErr_NoMemory();
goto fail;
}
info->strides = info->shape + PyArray_NDIM(arr);
@@ -796,8 +831,6 @@ gentype_getbuffer(PyObject *self, Py_buffer *view, int flags)
/* Fill in information */
info = _buffer_get_info(self);
if (info == NULL) {
- PyErr_SetString(PyExc_BufferError,
- "could not get scalar buffer information");
goto fail;
}
@@ -820,6 +853,9 @@ gentype_getbuffer(PyObject *self, Py_buffer *view, int flags)
}
#endif
view->len = elsize;
+ if (PyArray_IsScalar(self, Datetime) || PyArray_IsScalar(self, Timedelta)) {
+ elsize = 1; /* descr->elsize,char is 8,'M', but we return 1,'B' */
+ }
view->itemsize = elsize;
Py_DECREF(descr);
diff --git a/numpy/core/src/multiarray/ctors.c b/numpy/core/src/multiarray/ctors.c
index 7367902cc..28a414892 100644
--- a/numpy/core/src/multiarray/ctors.c
+++ b/numpy/core/src/multiarray/ctors.c
@@ -92,6 +92,7 @@ swab_separator(const char *sep)
s = start = malloc(strlen(sep)+3);
if (s == NULL) {
+ PyErr_NoMemory();
return NULL;
}
/* add space to front if there isn't one */
@@ -1389,10 +1390,12 @@ _array_from_buffer_3118(PyObject *memoryview)
if (!is_ctypes) {
/* This object has no excuse for a broken PEP3118 buffer */
- PyErr_SetString(
+ PyErr_Format(
PyExc_RuntimeError,
- "Item size computed from the PEP 3118 buffer format "
- "string does not match the actual item size.");
+ "Item size %zd for PEP 3118 buffer format "
+ "string %s does not match the dtype %c item size %d.",
+ view->itemsize, view->format, descr->type,
+ descr->elsize);
Py_DECREF(descr);
return NULL;
}
diff --git a/numpy/core/src/multiarray/descriptor.c b/numpy/core/src/multiarray/descriptor.c
index bb3cc9d4e..a0dc98f0e 100644
--- a/numpy/core/src/multiarray/descriptor.c
+++ b/numpy/core/src/multiarray/descriptor.c
@@ -83,7 +83,7 @@ _arraydescr_fromctypes(PyObject *obj)
/* derived type */
PyObject *newtup;
PyArray_Descr *derived;
- newtup = Py_BuildValue("NN", newdescr, length);
+ newtup = Py_BuildValue("N(N)", newdescr, length);
ret = PyArray_DescrConverter(newtup, &derived);
Py_DECREF(newtup);
if (ret == NPY_SUCCEED) {
diff --git a/numpy/core/src/multiarray/dragon4.c b/numpy/core/src/multiarray/dragon4.c
index abbf05220..14dfa71c2 100644
--- a/numpy/core/src/multiarray/dragon4.c
+++ b/numpy/core/src/multiarray/dragon4.c
@@ -114,7 +114,7 @@ LogBase2_64(npy_uint64 val)
return LogBase2_32((npy_uint32)val);
}
-#if defined(HAVE_LDOUBLE_IEEE_QUAD_LE)
+#if defined(HAVE_LDOUBLE_IEEE_QUAD_LE) || defined(HAVE_LDOUBLE_IEEE_QUAD_BE)
static npy_uint32
LogBase2_128(npy_uint64 hi, npy_uint64 lo)
{
@@ -217,7 +217,8 @@ BigInt_Set_uint64(BigInt *i, npy_uint64 val)
#if (defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_LE) || \
defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_BE) || \
- defined(HAVE_LDOUBLE_IEEE_QUAD_LE))
+ defined(HAVE_LDOUBLE_IEEE_QUAD_LE) || \
+ defined(HAVE_LDOUBLE_IEEE_QUAD_BE))
static void
BigInt_Set_2x_uint64(BigInt *i, npy_uint64 hi, npy_uint64 lo)
{
@@ -2845,7 +2846,7 @@ Dragon4_PrintFloat_IEEE_binary128_be(
#if (defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_LE) || \
defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_BE))
/*
- * IBM extended precision 128-bit floating-point format, aka IBM double-dobule
+ * IBM extended precision 128-bit floating-point format, aka IBM double-double
*
* IBM's double-double type is a pair of IEEE binary64 values, which you add
* together to get a total value. The exponents are arranged so that the lower
@@ -2882,12 +2883,15 @@ Dragon4_PrintFloat_IEEE_binary128_be(
*/
static npy_uint32
Dragon4_PrintFloat_IBM_double_double(
- Dragon4_Scratch *scratch, FloatVal128 val128, Dragon4_Options *opt)
+ Dragon4_Scratch *scratch, npy_float128 *value, Dragon4_Options *opt)
{
char *buffer = scratch->repr;
npy_uint32 bufferSize = sizeof(scratch->repr);
BigInt *bigints = scratch->bigints;
+ FloatVal128 val128;
+ FloatUnion128 buf128;
+
npy_uint32 floatExponent1, floatExponent2;
npy_uint64 floatMantissa1, floatMantissa2;
npy_uint32 floatSign1, floatSign2;
@@ -2908,6 +2912,12 @@ Dragon4_PrintFloat_IBM_double_double(
return 0;
}
+ /* The high part always comes before the low part, regardless of the
+ * endianness of the system. */
+ buf128.floatingPoint = *value;
+ val128.hi = buf128.integer.a;
+ val128.lo = buf128.integer.b;
+
/* deconstruct the floating point values */
floatMantissa1 = val128.hi & bitmask_u64(52);
floatExponent1 = (val128.hi >> 52) & bitmask_u32(11);
@@ -3052,39 +3062,6 @@ Dragon4_PrintFloat_IBM_double_double(
signbit, mantissaBit, hasUnequalMargins, opt);
}
-#if defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_LE)
-static npy_uint32
-Dragon4_PrintFloat_IBM_double_double_le(
- Dragon4_Scratch *scratch, npy_float128 *value, Dragon4_Options *opt)
-{
- FloatVal128 val128;
- FloatUnion128 buf128;
-
- buf128.floatingPoint = *value;
- val128.lo = buf128.integer.a;
- val128.hi = buf128.integer.b;
-
- return Dragon4_PrintFloat_IBM_double_double(scratch, val128, opt);
-}
-#endif /* HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_LE */
-
-#if defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_BE)
-static npy_uint32
-Dragon4_PrintFloat_IBM_double_double_be(
- Dragon4_Scratch *scratch, npy_float128 *value, Dragon4_Options *opt)
-{
- FloatVal128 val128;
- FloatUnion128 buf128;
-
- buf128.floatingPoint = *value;
- val128.hi = buf128.integer.a;
- val128.lo = buf128.integer.b;
-
- return Dragon4_PrintFloat_IBM_double_double(scratch, val128, opt);
-}
-
-#endif /* HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_BE */
-
#endif /* HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_LE | HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_BE */
#endif /* NPY_FLOAT128 */
diff --git a/numpy/core/src/multiarray/dragon4.h b/numpy/core/src/multiarray/dragon4.h
index 383a0949d..2b8b4cef4 100644
--- a/numpy/core/src/multiarray/dragon4.h
+++ b/numpy/core/src/multiarray/dragon4.h
@@ -75,10 +75,9 @@
#define NPY_LONGDOUBLE_BINFMT_NAME Intel_extended128
#elif defined(HAVE_LDOUBLE_MOTOROLA_EXTENDED_12_BYTES_BE)
#define NPY_LONGDOUBLE_BINFMT_NAME Motorola_extended96
-#elif defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_LE)
- #define NPY_LONGDOUBLE_BINFMT_NAME IBM_double_double_le
-#elif defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_BE)
- #define NPY_LONGDOUBLE_BINFMT_NAME IBM_double_double_be
+#elif (defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_LE) || \
+ defined(HAVE_LDOUBLE_IBM_DOUBLE_DOUBLE_BE))
+ #define NPY_LONGDOUBLE_BINFMT_NAME IBM_double_double
#else
#error No long double representation defined
#endif
diff --git a/numpy/core/src/multiarray/multiarraymodule.c b/numpy/core/src/multiarray/multiarraymodule.c
index f78a748c0..fe19cc9ad 100644
--- a/numpy/core/src/multiarray/multiarraymodule.c
+++ b/numpy/core/src/multiarray/multiarraymodule.c
@@ -2116,7 +2116,7 @@ array_fromstring(PyObject *NPY_UNUSED(ignored), PyObject *args, PyObject *keywds
if (DEPRECATE(
"The binary mode of fromstring is deprecated, as it behaves "
"surprisingly on unicode inputs. Use frombuffer instead") < 0) {
- Py_DECREF(descr);
+ Py_XDECREF(descr);
return NULL;
}
}
diff --git a/numpy/core/src/umath/loops.c.src b/numpy/core/src/umath/loops.c.src
index 1ca298b30..0b02031a7 100644
--- a/numpy/core/src/umath/loops.c.src
+++ b/numpy/core/src/umath/loops.c.src
@@ -1874,9 +1874,13 @@ NPY_NO_EXPORT void
}
else {
BINARY_LOOP {
- const @type@ in1 = *(@type@ *)ip1;
+ @type@ in1 = *(@type@ *)ip1;
const @type@ in2 = *(@type@ *)ip2;
- *((@type@ *)op1) = (in1 @OP@ in2 || npy_isnan(in1)) ? in1 : in2;
+ in1 = (in1 @OP@ in2 || npy_isnan(in1)) ? in1 : in2;
+ if (npy_isnan(in1)) {
+ npy_set_floatstatus_invalid();
+ }
+ *((@type@ *)op1) = in1;
}
}
}
diff --git a/numpy/core/tests/test_datetime.py b/numpy/core/tests/test_datetime.py
index 942554cae..b1b1e87c1 100644
--- a/numpy/core/tests/test_datetime.py
+++ b/numpy/core/tests/test_datetime.py
@@ -620,6 +620,10 @@ class TestDateTime(object):
assert_equal(pickle.loads(pickle.dumps(dt)), dt)
dt = np.dtype('M8[W]')
assert_equal(pickle.loads(pickle.dumps(dt)), dt)
+ scalar = np.datetime64('2016-01-01T00:00:00.000000000')
+ assert_equal(pickle.loads(pickle.dumps(scalar)), scalar)
+ delta = scalar - np.datetime64('2015-01-01T00:00:00.000000000')
+ assert_equal(pickle.loads(pickle.dumps(delta)), delta)
# Check that loading pickles from 1.6 works
pkl = b"cnumpy\ndtype\np0\n(S'M8'\np1\nI0\nI1\ntp2\nRp3\n" + \
diff --git a/numpy/core/tests/test_deprecations.py b/numpy/core/tests/test_deprecations.py
index 60a7c72f7..8dd42b21c 100644
--- a/numpy/core/tests/test_deprecations.py
+++ b/numpy/core/tests/test_deprecations.py
@@ -504,3 +504,9 @@ class TestGeneratorSum(_DeprecationTestCase):
# 2018-02-25, 1.15.0
def test_generator_sum(self):
self.assert_deprecated(np.sum, args=((i for i in range(5)),))
+
+
+class TestFromstring(_DeprecationTestCase):
+ # 2017-10-19, 1.14
+ def test_fromstring(self):
+ self.assert_deprecated(np.fromstring, args=('\x00'*80,))
diff --git a/numpy/core/tests/test_dtype.py b/numpy/core/tests/test_dtype.py
index 27fbb10d5..31ef9d609 100644
--- a/numpy/core/tests/test_dtype.py
+++ b/numpy/core/tests/test_dtype.py
@@ -4,6 +4,7 @@ import pickle
import sys
import operator
import pytest
+import ctypes
import numpy as np
from numpy.core._rational_tests import rational
@@ -728,3 +729,74 @@ def test_dtypes_are_true():
def test_invalid_dtype_string():
# test for gh-10440
assert_raises(TypeError, np.dtype, 'f8,i8,[f8,i8]')
+
+
+class TestFromCTypes(object):
+
+ @staticmethod
+ def check(ctype, dtype):
+ dtype = np.dtype(dtype)
+ assert_equal(np.dtype(ctype), dtype)
+ assert_equal(np.dtype(ctype()), dtype)
+
+ def test_array(self):
+ c8 = ctypes.c_uint8
+ self.check( 3 * c8, (np.uint8, (3,)))
+ self.check( 1 * c8, (np.uint8, (1,)))
+ self.check( 0 * c8, (np.uint8, (0,)))
+ self.check(1 * (3 * c8), ((np.uint8, (3,)), (1,)))
+ self.check(3 * (1 * c8), ((np.uint8, (1,)), (3,)))
+
+ def test_padded_structure(self):
+ class PaddedStruct(ctypes.Structure):
+ _fields_ = [
+ ('a', ctypes.c_uint8),
+ ('b', ctypes.c_uint16)
+ ]
+ expected = np.dtype([
+ ('a', np.uint8),
+ ('b', np.uint16)
+ ], align=True)
+ self.check(PaddedStruct, expected)
+
+ @pytest.mark.xfail(reason="_pack_ is ignored - see gh-11651")
+ def test_packed_structure(self):
+ class PackedStructure(ctypes.Structure):
+ _pack_ = 1
+ _fields_ = [
+ ('a', ctypes.c_uint8),
+ ('b', ctypes.c_uint16)
+ ]
+ expected = np.dtype([
+ ('a', np.uint8),
+ ('b', np.uint16)
+ ])
+ self.check(PackedStructure, expected)
+
+ @pytest.mark.xfail(sys.byteorder != 'little',
+ reason="non-native endianness does not work - see gh-10533")
+ def test_little_endian_structure(self):
+ class PaddedStruct(ctypes.LittleEndianStructure):
+ _fields_ = [
+ ('a', ctypes.c_uint8),
+ ('b', ctypes.c_uint16)
+ ]
+ expected = np.dtype([
+ ('a', '<B'),
+ ('b', '<H')
+ ], align=True)
+ self.check(PaddedStruct, expected)
+
+ @pytest.mark.xfail(sys.byteorder != 'big',
+ reason="non-native endianness does not work - see gh-10533")
+ def test_big_endian_structure(self):
+ class PaddedStruct(ctypes.BigEndianStructure):
+ _fields_ = [
+ ('a', ctypes.c_uint8),
+ ('b', ctypes.c_uint16)
+ ]
+ expected = np.dtype([
+ ('a', '>B'),
+ ('b', '>H')
+ ], align=True)
+ self.check(PaddedStruct, expected)
diff --git a/numpy/core/tests/test_multiarray.py b/numpy/core/tests/test_multiarray.py
index 37d73e42c..4cc38a9b5 100644
--- a/numpy/core/tests/test_multiarray.py
+++ b/numpy/core/tests/test_multiarray.py
@@ -4707,55 +4707,72 @@ class TestRecord(object):
# Error raised when multiple fields have the same name
assert_raises(ValueError, test_assign)
- if sys.version_info[0] >= 3:
- def test_bytes_fields(self):
- # Bytes are not allowed in field names and not recognized in titles
- # on Py3
- assert_raises(TypeError, np.dtype, [(b'a', int)])
- assert_raises(TypeError, np.dtype, [(('b', b'a'), int)])
-
- dt = np.dtype([((b'a', 'b'), int)])
- assert_raises(TypeError, dt.__getitem__, b'a')
-
- x = np.array([(1,), (2,), (3,)], dtype=dt)
- assert_raises(IndexError, x.__getitem__, b'a')
-
- y = x[0]
- assert_raises(IndexError, y.__getitem__, b'a')
-
- def test_multiple_field_name_unicode(self):
- def test_assign_unicode():
- dt = np.dtype([("\u20B9", "f8"),
- ("B", "f8"),
- ("\u20B9", "f8")])
-
- # Error raised when multiple fields have the same name(unicode included)
- assert_raises(ValueError, test_assign_unicode)
-
- else:
- def test_unicode_field_titles(self):
- # Unicode field titles are added to field dict on Py2
- title = u'b'
- dt = np.dtype([((title, 'a'), int)])
- dt[title]
- dt['a']
- x = np.array([(1,), (2,), (3,)], dtype=dt)
- x[title]
- x['a']
- y = x[0]
- y[title]
- y['a']
-
- def test_unicode_field_names(self):
- # Unicode field names are converted to ascii on Python 2:
- encodable_name = u'b'
- assert_equal(np.dtype([(encodable_name, int)]).names[0], b'b')
- assert_equal(np.dtype([(('a', encodable_name), int)]).names[0], b'b')
-
- # But raises UnicodeEncodeError if it can't be encoded:
- nonencodable_name = u'\uc3bc'
- assert_raises(UnicodeEncodeError, np.dtype, [(nonencodable_name, int)])
- assert_raises(UnicodeEncodeError, np.dtype, [(('a', nonencodable_name), int)])
+ @pytest.mark.skipif(sys.version_info[0] < 3, reason="Not Python 3")
+ def test_bytes_fields(self):
+ # Bytes are not allowed in field names and not recognized in titles
+ # on Py3
+ assert_raises(TypeError, np.dtype, [(b'a', int)])
+ assert_raises(TypeError, np.dtype, [(('b', b'a'), int)])
+
+ dt = np.dtype([((b'a', 'b'), int)])
+ assert_raises(TypeError, dt.__getitem__, b'a')
+
+ x = np.array([(1,), (2,), (3,)], dtype=dt)
+ assert_raises(IndexError, x.__getitem__, b'a')
+
+ y = x[0]
+ assert_raises(IndexError, y.__getitem__, b'a')
+
+ @pytest.mark.skipif(sys.version_info[0] < 3, reason="Not Python 3")
+ def test_multiple_field_name_unicode(self):
+ def test_assign_unicode():
+ dt = np.dtype([("\u20B9", "f8"),
+ ("B", "f8"),
+ ("\u20B9", "f8")])
+
+ # Error raised when multiple fields have the same name(unicode included)
+ assert_raises(ValueError, test_assign_unicode)
+
+ @pytest.mark.skipif(sys.version_info[0] >= 3, reason="Not Python 2")
+ def test_unicode_field_titles(self):
+ # Unicode field titles are added to field dict on Py2
+ title = u'b'
+ dt = np.dtype([((title, 'a'), int)])
+ dt[title]
+ dt['a']
+ x = np.array([(1,), (2,), (3,)], dtype=dt)
+ x[title]
+ x['a']
+ y = x[0]
+ y[title]
+ y['a']
+
+ @pytest.mark.skipif(sys.version_info[0] >= 3, reason="Not Python 2")
+ def test_unicode_field_names(self):
+ # Unicode field names are converted to ascii on Python 2:
+ encodable_name = u'b'
+ assert_equal(np.dtype([(encodable_name, int)]).names[0], b'b')
+ assert_equal(np.dtype([(('a', encodable_name), int)]).names[0], b'b')
+
+ # But raises UnicodeEncodeError if it can't be encoded:
+ nonencodable_name = u'\uc3bc'
+ assert_raises(UnicodeEncodeError, np.dtype, [(nonencodable_name, int)])
+ assert_raises(UnicodeEncodeError, np.dtype, [(('a', nonencodable_name), int)])
+
+ def test_fromarrays_unicode(self):
+ # A single name string provided to fromarrays() is allowed to be unicode
+ # on both Python 2 and 3:
+ x = np.core.records.fromarrays([[0], [1]], names=u'a,b', formats=u'i4,i4')
+ assert_equal(x['a'][0], 0)
+ assert_equal(x['b'][0], 1)
+
+ def test_unicode_order(self):
+ # Test that we can sort with order as a unicode field name in both Python 2 and
+ # 3:
+ name = u'b'
+ x = np.array([1, 3, 2], dtype=[(name, int)])
+ x.sort(order=name)
+ assert_equal(x[u'b'], np.array([1, 2, 3]))
def test_field_names(self):
# Test unicode and 8-bit / byte strings can be used
@@ -6429,6 +6446,15 @@ class TestNewBufferProtocol(object):
# Issue #4015.
self._check_roundtrip(0)
+ def test_invalid_buffer_format(self):
+ # datetime64 cannot be used fully in a buffer yet
+ # Should be fixed in the next Numpy major release
+ dt = np.dtype([('a', 'uint16'), ('b', 'M8[s]')])
+ a = np.empty(3, dt)
+ assert_raises((ValueError, BufferError), memoryview, a)
+ assert_raises((ValueError, BufferError), memoryview, np.array((3), 'M8[D]'))
+
+
def test_export_simple_1d(self):
x = np.array([1, 2, 3, 4, 5], dtype='i')
y = memoryview(x)
diff --git a/numpy/core/tests/test_regression.py b/numpy/core/tests/test_regression.py
index 62f592524..51fe13f5d 100644
--- a/numpy/core/tests/test_regression.py
+++ b/numpy/core/tests/test_regression.py
@@ -2366,6 +2366,13 @@ class TestRegression(object):
del va
assert_equal(x, b'\x00\x00\x00\x00')
+ def test_void_getitem(self):
+ # Test fix for gh-11668.
+ assert_(np.array([b'a'], 'V1').astype('O') == b'a')
+ assert_(np.array([b'ab'], 'V2').astype('O') == b'ab')
+ assert_(np.array([b'abc'], 'V3').astype('O') == b'abc')
+ assert_(np.array([b'abcd'], 'V4').astype('O') == b'abcd')
+
def test_structarray_title(self):
# The following used to segfault on pypy, due to NPY_TITLE_KEY
# not working properly and resulting to double-decref of the
diff --git a/numpy/core/tests/test_scalarbuffer.py b/numpy/core/tests/test_scalarbuffer.py
index 6d57a5014..cb6c521e1 100644
--- a/numpy/core/tests/test_scalarbuffer.py
+++ b/numpy/core/tests/test_scalarbuffer.py
@@ -5,7 +5,7 @@ import sys
import numpy as np
import pytest
-from numpy.testing import assert_, assert_equal
+from numpy.testing import assert_, assert_equal, assert_raises
# PEP3118 format strings for native (standard alignment and byteorder) types
scalars_and_codes = [
@@ -77,3 +77,28 @@ class TestScalarPEP3118(object):
mv_a = memoryview(a)
assert_equal(mv_x.itemsize, mv_a.itemsize)
assert_equal(mv_x.format, mv_a.format)
+
+ def test_datetime_memoryview(self):
+ # gh-11656
+ # Values verified with v1.13.3, shape is not () as in test_scalar_dim
+ def as_dict(m):
+ return dict(strides=m.strides, shape=m.shape, itemsize=m.itemsize,
+ ndim=m.ndim, format=m.format)
+
+ dt1 = np.datetime64('2016-01-01')
+ dt2 = np.datetime64('2017-01-01')
+ expected = {'strides': (1,), 'itemsize': 1, 'ndim': 1,
+ 'shape': (8,), 'format': 'B'}
+ v = memoryview(dt1)
+ res = as_dict(v)
+ assert_equal(res, expected)
+
+ v = memoryview(dt2 - dt1)
+ res = as_dict(v)
+ assert_equal(res, expected)
+
+ dt = np.dtype([('a', 'uint16'), ('b', 'M8[s]')])
+ a = np.empty(1, dt)
+ # Fails to create a PEP 3118 valid buffer
+ assert_raises((ValueError, BufferError), memoryview, a[0])
+
diff --git a/numpy/core/tests/test_umath.py b/numpy/core/tests/test_umath.py
index 4772913be..29850108d 100644
--- a/numpy/core/tests/test_umath.py
+++ b/numpy/core/tests/test_umath.py
@@ -14,7 +14,7 @@ from numpy.testing import (
assert_, assert_equal, assert_raises, assert_raises_regex,
assert_array_equal, assert_almost_equal, assert_array_almost_equal,
assert_allclose, assert_no_warnings, suppress_warnings,
- _gen_alignment_data,
+ _gen_alignment_data, assert_warns
)
@@ -1339,6 +1339,10 @@ class TestMinMax(object):
assert_equal(np.min(r), np.nan)
assert_equal(len(sup.log), n)
+ def test_minimize_warns(self):
+ # gh 11589
+ assert_warns(RuntimeWarning, np.minimum, np.nan, 1)
+
class TestAbsoluteNegative(object):
def test_abs_neg_blocked(self):
diff --git a/numpy/f2py/crackfortran.py b/numpy/f2py/crackfortran.py
index 78802ef07..2510e18a0 100755
--- a/numpy/f2py/crackfortran.py
+++ b/numpy/f2py/crackfortran.py
@@ -2392,7 +2392,7 @@ def _selected_real_kind_func(p, r=0, radix=0):
if p < 16:
return 8
machine = platform.machine().lower()
- if machine.startswith('power') or machine.startswith('ppc64'):
+ if machine.startswith(('aarch64', 'power', 'ppc64', 's390x')):
if p <= 20:
return 16
else:
diff --git a/numpy/lib/_datasource.py b/numpy/lib/_datasource.py
index 6f1295f09..ab00b1444 100644
--- a/numpy/lib/_datasource.py
+++ b/numpy/lib/_datasource.py
@@ -37,6 +37,7 @@ from __future__ import division, absolute_import, print_function
import os
import sys
+import warnings
import shutil
import io
@@ -85,9 +86,10 @@ def _python2_bz2open(fn, mode, encoding, newline):
if "t" in mode:
# BZ2File is missing necessary functions for TextIOWrapper
- raise ValueError("bz2 text files not supported in python2")
- else:
- return bz2.BZ2File(fn, mode)
+ warnings.warn("Assuming latin1 encoding for bz2 text file in Python2",
+ RuntimeWarning, stacklevel=5)
+ mode = mode.replace("t", "")
+ return bz2.BZ2File(fn, mode)
def _python2_gzipopen(fn, mode, encoding, newline):
""" Wrapper to open gzip in text mode.
diff --git a/numpy/lib/arraysetops.py b/numpy/lib/arraysetops.py
index 4d3f35183..c1f9f5bea 100644
--- a/numpy/lib/arraysetops.py
+++ b/numpy/lib/arraysetops.py
@@ -312,12 +312,12 @@ def intersect1d(ar1, ar2, assume_unique=False, return_indices=False):
If True, the input arrays are both assumed to be unique, which
can speed up the calculation. Default is False.
return_indices : bool
- If True, the indices which correspond to the intersection of the
- two arrays are returned. The first instance of a value is used
- if there are multiple. Default is False.
-
- .. versionadded:: 1.15.0
-
+ If True, the indices which correspond to the intersection of the two
+ arrays are returned. The first instance of a value is used if there are
+ multiple. Default is False.
+
+ .. versionadded:: 1.15.0
+
Returns
-------
intersect1d : ndarray
@@ -326,7 +326,7 @@ def intersect1d(ar1, ar2, assume_unique=False, return_indices=False):
The indices of the first occurrences of the common values in `ar1`.
Only provided if `return_indices` is True.
comm2 : ndarray
- The indices of the first occurrences of the common values in `ar2`.
+ The indices of the first occurrences of the common values in `ar2`.
Only provided if `return_indices` is True.
@@ -345,7 +345,7 @@ def intersect1d(ar1, ar2, assume_unique=False, return_indices=False):
>>> from functools import reduce
>>> reduce(np.intersect1d, ([1, 3, 4, 3], [3, 1, 2, 1], [6, 3, 4, 2]))
array([3])
-
+
To return the indices of the values common to the input arrays
along with the intersected values:
>>> x = np.array([1, 1, 2, 3, 4])
@@ -355,8 +355,11 @@ def intersect1d(ar1, ar2, assume_unique=False, return_indices=False):
(array([0, 2, 4]), array([1, 0, 2]))
>>> xy, x[x_ind], y[y_ind]
(array([1, 2, 4]), array([1, 2, 4]), array([1, 2, 4]))
-
+
"""
+ ar1 = np.asanyarray(ar1)
+ ar2 = np.asanyarray(ar2)
+
if not assume_unique:
if return_indices:
ar1, ind1 = unique(ar1, return_index=True)
@@ -367,7 +370,7 @@ def intersect1d(ar1, ar2, assume_unique=False, return_indices=False):
else:
ar1 = ar1.ravel()
ar2 = ar2.ravel()
-
+
aux = np.concatenate((ar1, ar2))
if return_indices:
aux_sort_indices = np.argsort(aux, kind='mergesort')
@@ -389,6 +392,7 @@ def intersect1d(ar1, ar2, assume_unique=False, return_indices=False):
else:
return int1d
+
def setxor1d(ar1, ar2, assume_unique=False):
"""
Find the set exclusive-or of two arrays.
diff --git a/numpy/lib/histograms.py b/numpy/lib/histograms.py
index 03399c561..47ee92928 100644
--- a/numpy/lib/histograms.py
+++ b/numpy/lib/histograms.py
@@ -260,6 +260,32 @@ def _get_outer_edges(a, range):
return first_edge, last_edge
+def _unsigned_subtract(a, b):
+ """
+ Subtract two values where a >= b, and produce an unsigned result
+
+ This is needed when finding the difference between the upper and lower
+ bound of an int16 histogram
+ """
+ # coerce to a single type
+ signed_to_unsigned = {
+ np.byte: np.ubyte,
+ np.short: np.ushort,
+ np.intc: np.uintc,
+ np.int_: np.uint,
+ np.longlong: np.ulonglong
+ }
+ dt = np.result_type(a, b)
+ try:
+ dt = signed_to_unsigned[dt.type]
+ except KeyError:
+ return np.subtract(a, b, dtype=dt)
+ else:
+ # we know the inputs are integers, and we are deliberately casting
+ # signed to unsigned
+ return np.subtract(a, b, casting='unsafe', dtype=dt)
+
+
def _get_bin_edges(a, bins, range, weights):
"""
Computes the bins used internally by `histogram`.
@@ -311,7 +337,7 @@ def _get_bin_edges(a, bins, range, weights):
# Do not call selectors on empty arrays
width = _hist_bin_selectors[bin_name](a)
if width:
- n_equal_bins = int(np.ceil((last_edge - first_edge) / width))
+ n_equal_bins = int(np.ceil(_unsigned_subtract(last_edge, first_edge) / width))
else:
# Width can be zero for some estimators, e.g. FD when
# the IQR of the data is zero.
@@ -703,7 +729,7 @@ def histogram(a, bins=10, range=None, normed=None, weights=None,
n = np.zeros(n_equal_bins, ntype)
# Pre-compute histogram scaling factor
- norm = n_equal_bins / (last_edge - first_edge)
+ norm = n_equal_bins / _unsigned_subtract(last_edge, first_edge)
# We iterate over blocks here for two reasons: the first is that for
# large arrays, it is actually faster (for example for a 10^8 array it
@@ -731,7 +757,7 @@ def histogram(a, bins=10, range=None, normed=None, weights=None,
# Compute the bin indices, and for values that lie exactly on
# last_edge we need to subtract one
- f_indices = (tmp_a - first_edge) * norm
+ f_indices = _unsigned_subtract(tmp_a, first_edge) * norm
indices = f_indices.astype(np.intp)
indices[indices == n_equal_bins] -= 1
diff --git a/numpy/lib/tests/test__datasource.py b/numpy/lib/tests/test__datasource.py
index 32812990c..85788941c 100644
--- a/numpy/lib/tests/test__datasource.py
+++ b/numpy/lib/tests/test__datasource.py
@@ -2,11 +2,14 @@ from __future__ import division, absolute_import, print_function
import os
import sys
+import pytest
from tempfile import mkdtemp, mkstemp, NamedTemporaryFile
from shutil import rmtree
-from numpy.testing import assert_, assert_equal, assert_raises, SkipTest
import numpy.lib._datasource as datasource
+from numpy.testing import (
+ assert_, assert_equal, assert_raises, assert_warns, SkipTest
+ )
if sys.version_info[0] >= 3:
import urllib.request as urllib_request
@@ -30,14 +33,14 @@ def urlopen_stub(url, data=None):
old_urlopen = None
-def setup():
+def setup_module():
global old_urlopen
old_urlopen = urllib_request.urlopen
urllib_request.urlopen = urlopen_stub
-def teardown():
+def teardown_module():
urllib_request.urlopen = old_urlopen
# A valid website for more robust testing
@@ -161,6 +164,24 @@ class TestDataSourceOpen(object):
fp.close()
assert_equal(magic_line, result)
+ @pytest.mark.skipif(sys.version_info[0] >= 3, reason="Python 2 only")
+ def test_Bz2File_text_mode_warning(self):
+ try:
+ import bz2
+ except ImportError:
+ # We don't have the bz2 capabilities to test.
+ raise SkipTest
+ # Test datasource's internal file_opener for BZip2 files.
+ filepath = os.path.join(self.tmpdir, 'foobar.txt.bz2')
+ fp = bz2.BZ2File(filepath, 'w')
+ fp.write(magic_line)
+ fp.close()
+ with assert_warns(RuntimeWarning):
+ fp = self.ds.open(filepath, 'rt')
+ result = fp.readline()
+ fp.close()
+ assert_equal(magic_line, result)
+
class TestDataSourceExists(object):
def setup(self):
diff --git a/numpy/lib/tests/test_arraysetops.py b/numpy/lib/tests/test_arraysetops.py
index dace5ade8..c76afb8e5 100644
--- a/numpy/lib/tests/test_arraysetops.py
+++ b/numpy/lib/tests/test_arraysetops.py
@@ -30,19 +30,30 @@ class TestSetOps(object):
ed = np.array([1, 2, 5])
c = intersect1d(a, b)
assert_array_equal(c, ed)
-
assert_array_equal([], intersect1d([], []))
-
+
+ def test_intersect1d_array_like(self):
+ # See gh-11772
+ class Test(object):
+ def __array__(self):
+ return np.arange(3)
+
+ a = Test()
+ res = intersect1d(a, a)
+ assert_array_equal(res, a)
+ res = intersect1d([1, 2, 3], [1, 2, 3])
+ assert_array_equal(res, [1, 2, 3])
+
def test_intersect1d_indices(self):
# unique inputs
- a = np.array([1, 2, 3, 4])
+ a = np.array([1, 2, 3, 4])
b = np.array([2, 1, 4, 6])
c, i1, i2 = intersect1d(a, b, assume_unique=True, return_indices=True)
ee = np.array([1, 2, 4])
assert_array_equal(c, ee)
assert_array_equal(a[i1], ee)
assert_array_equal(b[i2], ee)
-
+
# non-unique inputs
a = np.array([1, 2, 2, 3, 4, 3, 2])
b = np.array([1, 8, 4, 2, 2, 3, 2, 3])
@@ -51,7 +62,7 @@ class TestSetOps(object):
assert_array_equal(c, ef)
assert_array_equal(a[i1], ef)
assert_array_equal(b[i2], ef)
-
+
# non1d, unique inputs
a = np.array([[2, 4, 5, 6], [7, 8, 1, 15]])
b = np.array([[3, 2, 7, 6], [10, 12, 8, 9]])
@@ -61,7 +72,7 @@ class TestSetOps(object):
ea = np.array([2, 6, 7, 8])
assert_array_equal(ea, a[ui1])
assert_array_equal(ea, b[ui2])
-
+
# non1d, not assumed to be uniqueinputs
a = np.array([[2, 4, 5, 6, 6], [4, 7, 8, 7, 2]])
b = np.array([[3, 2, 7, 7], [10, 12, 8, 7]])
@@ -71,7 +82,7 @@ class TestSetOps(object):
ea = np.array([2, 7, 8])
assert_array_equal(ea, a[ui1])
assert_array_equal(ea, b[ui2])
-
+
def test_setxor1d(self):
a = np.array([5, 7, 1, 2])
b = np.array([2, 4, 3, 1, 5])
diff --git a/numpy/lib/tests/test_histograms.py b/numpy/lib/tests/test_histograms.py
index f136b5c81..561f5f938 100644
--- a/numpy/lib/tests/test_histograms.py
+++ b/numpy/lib/tests/test_histograms.py
@@ -310,6 +310,20 @@ class TestHistogram(object):
assert_equal(d_edge.dtype, dates.dtype)
assert_equal(t_edge.dtype, td)
+ def do_signed_overflow_bounds(self, dtype):
+ exponent = 8 * np.dtype(dtype).itemsize - 1
+ arr = np.array([-2**exponent + 4, 2**exponent - 4], dtype=dtype)
+ hist, e = histogram(arr, bins=2)
+ assert_equal(e, [-2**exponent + 4, 0, 2**exponent - 4])
+ assert_equal(hist, [1, 1])
+
+ def test_signed_overflow_bounds(self):
+ self.do_signed_overflow_bounds(np.byte)
+ self.do_signed_overflow_bounds(np.short)
+ self.do_signed_overflow_bounds(np.intc)
+ self.do_signed_overflow_bounds(np.int_)
+ self.do_signed_overflow_bounds(np.longlong)
+
def do_precision_lower_bound(self, float_small, float_large):
eps = np.finfo(float_large).eps
diff --git a/numpy/linalg/linalg.py b/numpy/linalg/linalg.py
index 98af0733b..5aad6c006 100644
--- a/numpy/linalg/linalg.py
+++ b/numpy/linalg/linalg.py
@@ -542,6 +542,8 @@ def matrix_power(a, n):
of the same shape as M is returned. If ``n < 0``, the inverse
is computed and then raised to the ``abs(n)``.
+ .. note:: Stacks of object matrices are not currently supported.
+
Parameters
----------
a : (..., M, M) array_like
@@ -604,6 +606,16 @@ def matrix_power(a, n):
except TypeError:
raise TypeError("exponent must be an integer")
+ # Fall back on dot for object arrays. Object arrays are not supported by
+ # the current implementation of matmul using einsum
+ if a.dtype != object:
+ fmatmul = matmul
+ elif a.ndim == 2:
+ fmatmul = dot
+ else:
+ raise NotImplementedError(
+ "matrix_power not supported for stacks of object arrays")
+
if n == 0:
a = empty_like(a)
a[...] = eye(a.shape[-2], dtype=a.dtype)
@@ -618,20 +630,20 @@ def matrix_power(a, n):
return a
elif n == 2:
- return matmul(a, a)
+ return fmatmul(a, a)
elif n == 3:
- return matmul(matmul(a, a), a)
+ return fmatmul(fmatmul(a, a), a)
# Use binary decomposition to reduce the number of matrix multiplications.
# Here, we iterate over the bits of n, from LSB to MSB, raise `a` to
# increasing powers of 2, and multiply into the result as needed.
z = result = None
while n > 0:
- z = a if z is None else matmul(z, z)
+ z = a if z is None else fmatmul(z, z)
n, bit = divmod(n, 2)
if bit:
- result = z if result is None else matmul(result, z)
+ result = z if result is None else fmatmul(result, z)
return result
diff --git a/numpy/linalg/tests/test_linalg.py b/numpy/linalg/tests/test_linalg.py
index 87dfe988a..07c7813c9 100644
--- a/numpy/linalg/tests/test_linalg.py
+++ b/numpy/linalg/tests/test_linalg.py
@@ -924,77 +924,94 @@ class TestLstsq(LstsqCases):
assert_(len(w) == 1)
+@pytest.mark.parametrize('dt', [np.dtype(c) for c in '?bBhHiIqQefdgFDGO'])
class TestMatrixPower(object):
- R90 = array([[0, 1], [-1, 0]])
- Arb22 = array([[4, -7], [-2, 10]])
+
+ rshft_0 = np.eye(4)
+ rshft_1 = rshft_0[[3, 0, 1, 2]]
+ rshft_2 = rshft_0[[2, 3, 0, 1]]
+ rshft_3 = rshft_0[[1, 2, 3, 0]]
+ rshft_all = [rshft_0, rshft_1, rshft_2, rshft_3]
noninv = array([[1, 0], [0, 0]])
- arbfloat = array([[[0.1, 3.2], [1.2, 0.7]],
- [[0.2, 6.4], [2.4, 1.4]]])
+ stacked = np.block([[[rshft_0]]]*2)
+ #FIXME the 'e' dtype might work in future
+ dtnoinv = [object, np.dtype('e'), np.dtype('g'), np.dtype('G')]
- large = identity(10)
- t = large[1, :].copy()
- large[1, :] = large[0, :]
- large[0, :] = t
- def test_large_power(self):
+ def test_large_power(self, dt):
+ power = matrix_power
+ rshft = self.rshft_1.astype(dt)
assert_equal(
- matrix_power(self.R90, 2 ** 100 + 2 ** 10 + 2 ** 5 + 1), self.R90)
+ matrix_power(rshft, 2**100 + 2**10 + 2**5 + 0), self.rshft_0)
assert_equal(
- matrix_power(self.R90, 2 ** 100 + 2 ** 10 + 1), self.R90)
+ matrix_power(rshft, 2**100 + 2**10 + 2**5 + 1), self.rshft_1)
assert_equal(
- matrix_power(self.R90, 2 ** 100 + 2 + 1), -self.R90)
-
- def test_large_power_trailing_zero(self):
+ matrix_power(rshft, 2**100 + 2**10 + 2**5 + 2), self.rshft_2)
assert_equal(
- matrix_power(self.R90, 2 ** 100 + 2 ** 10 + 2 ** 5), identity(2))
+ matrix_power(rshft, 2**100 + 2**10 + 2**5 + 3), self.rshft_3)
- def testip_zero(self):
+ def test_power_is_zero(self, dt):
def tz(M):
mz = matrix_power(M, 0)
assert_equal(mz, identity_like_generalized(M))
assert_equal(mz.dtype, M.dtype)
- for M in [self.Arb22, self.arbfloat, self.large]:
- tz(M)
-
- def testip_one(self):
- def tz(M):
- mz = matrix_power(M, 1)
- assert_equal(mz, M)
- assert_equal(mz.dtype, M.dtype)
- for M in [self.Arb22, self.arbfloat, self.large]:
- tz(M)
-
- def testip_two(self):
- def tz(M):
- mz = matrix_power(M, 2)
- assert_equal(mz, matmul(M, M))
- assert_equal(mz.dtype, M.dtype)
- for M in [self.Arb22, self.arbfloat, self.large]:
- tz(M)
-
- def testip_invert(self):
- def tz(M):
- mz = matrix_power(M, -1)
- assert_almost_equal(matmul(mz, M), identity_like_generalized(M))
- for M in [self.R90, self.Arb22, self.arbfloat, self.large]:
- tz(M)
-
- def test_invert_noninvertible(self):
- assert_raises(LinAlgError, matrix_power, self.noninv, -1)
-
- def test_invalid(self):
- assert_raises(TypeError, matrix_power, self.R90, 1.5)
- assert_raises(TypeError, matrix_power, self.R90, [1])
- assert_raises(LinAlgError, matrix_power, np.array([1]), 1)
- assert_raises(LinAlgError, matrix_power, np.array([[1], [2]]), 1)
- assert_raises(LinAlgError, matrix_power, np.ones((4, 3, 2)), 1)
-
-
-class TestBoolPower(object):
+
+ for mat in self.rshft_all:
+ tz(mat.astype(dt))
+ if dt != object:
+ tz(self.stacked.astype(dt))
+
+ def test_power_is_one(self, dt):
+ def tz(mat):
+ mz = matrix_power(mat, 1)
+ assert_equal(mz, mat)
+ assert_equal(mz.dtype, mat.dtype)
+
+ for mat in self.rshft_all:
+ tz(mat.astype(dt))
+ if dt != object:
+ tz(self.stacked.astype(dt))
+
+ def test_power_is_two(self, dt):
+ def tz(mat):
+ mz = matrix_power(mat, 2)
+ mmul = matmul if mat.dtype != object else dot
+ assert_equal(mz, mmul(mat, mat))
+ assert_equal(mz.dtype, mat.dtype)
+
+ for mat in self.rshft_all:
+ tz(mat.astype(dt))
+ if dt != object:
+ tz(self.stacked.astype(dt))
+
+ def test_power_is_minus_one(self, dt):
+ def tz(mat):
+ invmat = matrix_power(mat, -1)
+ mmul = matmul if mat.dtype != object else dot
+ assert_almost_equal(
+ mmul(invmat, mat), identity_like_generalized(mat))
+
+ for mat in self.rshft_all:
+ if dt not in self.dtnoinv:
+ tz(mat.astype(dt))
+
+ def test_exceptions_bad_power(self, dt):
+ mat = self.rshft_0.astype(dt)
+ assert_raises(TypeError, matrix_power, mat, 1.5)
+ assert_raises(TypeError, matrix_power, mat, [1])
+
+
+ def test_exceptions_non_square(self, dt):
+ assert_raises(LinAlgError, matrix_power, np.array([1], dt), 1)
+ assert_raises(LinAlgError, matrix_power, np.array([[1], [2]], dt), 1)
+ assert_raises(LinAlgError, matrix_power, np.ones((4, 3, 2), dt), 1)
+
+ def test_exceptions_not_invertible(self, dt):
+ if dt in self.dtnoinv:
+ return
+ mat = self.noninv.astype(dt)
+ assert_raises(LinAlgError, matrix_power, mat, -1)
- def test_square(self):
- A = array([[True, False], [True, True]])
- assert_equal(matrix_power(A, 2), A)
class TestEigvalshCases(HermitianTestCase, HermitianGeneralizedTestCase):
diff --git a/numpy/ma/tests/test_core.py b/numpy/ma/tests/test_core.py
index 67a9186a8..24657bd1e 100644
--- a/numpy/ma/tests/test_core.py
+++ b/numpy/ma/tests/test_core.py
@@ -3174,18 +3174,13 @@ class TestMaskedArrayMethods(object):
assert_equal(test.mask, mask_first.mask)
# Test sort on dtype with subarray (gh-8069)
+ # Just check that the sort does not error, structured array subarrays
+ # are treated as byte strings and that leads to differing behavior
+ # depending on endianess and `endwith`.
dt = np.dtype([('v', int, 2)])
a = a.view(dt)
- mask_last = mask_last.view(dt)
- mask_first = mask_first.view(dt)
-
test = sort(a)
- assert_equal(test, mask_last)
- assert_equal(test.mask, mask_last.mask)
-
test = sort(a, endwith=False)
- assert_equal(test, mask_first)
- assert_equal(test.mask, mask_first.mask)
def test_argsort(self):
# Test argsort
diff --git a/numpy/random/setup.py b/numpy/random/setup.py
index 3f3b773a4..a8d82b141 100644
--- a/numpy/random/setup.py
+++ b/numpy/random/setup.py
@@ -39,6 +39,9 @@ def configuration(parent_package='',top_path=None):
('_LARGEFILE64_SOURCE', '1')]
if needs_mingw_ftime_workaround():
defs.append(("NPY_NEEDS_MINGW_TIME_WORKAROUND", None))
+ # fix for 0.26 < cython < 0.29 and perhaps 0.28.5
+ # see https://github.com/cython/cython/issues/2494
+ defs.append(('CYTHON_SMALL_CODE', ''))
libs = []
# Configure mtrand
diff --git a/numpy/testing/_private/utils.py b/numpy/testing/_private/utils.py
index 032c4a116..e501b2be6 100644
--- a/numpy/testing/_private/utils.py
+++ b/numpy/testing/_private/utils.py
@@ -687,6 +687,8 @@ def assert_array_compare(comparison, x, y, err_msg='', verbose=True,
equal_inf=True):
__tracebackhide__ = True # Hide traceback for py.test
from numpy.core import array, isnan, inf, bool_
+ from numpy.core.fromnumeric import all as npall
+
x = array(x, copy=False, subok=True)
y = array(y, copy=False, subok=True)
@@ -697,14 +699,21 @@ def assert_array_compare(comparison, x, y, err_msg='', verbose=True,
return x.dtype.char in "Mm"
def func_assert_same_pos(x, y, func=isnan, hasval='nan'):
- """Handling nan/inf: combine results of running func on x and y,
- checking that they are True at the same locations."""
- # Both the != True comparison here and the cast to bool_ at
- # the end are done to deal with `masked`, which cannot be
- # compared usefully, and for which .all() yields masked.
+ """Handling nan/inf.
+
+ Combine results of running func on x and y, checking that they are True
+ at the same locations.
+
+ """
+ # Both the != True comparison here and the cast to bool_ at the end are
+ # done to deal with `masked`, which cannot be compared usefully, and
+ # for which np.all yields masked. The use of the function np.all is
+ # for back compatibility with ndarray subclasses that changed the
+ # return values of the all method. We are not committed to supporting
+ # such subclasses, but some used to work.
x_id = func(x)
y_id = func(y)
- if (x_id == y_id).all() != True:
+ if npall(x_id == y_id) != True:
msg = build_err_msg([x, y],
err_msg + '\nx and y %s location mismatch:'
% (hasval), verbose=verbose, header=header,
diff --git a/pavement.py b/pavement.py
index 3cb616a3a..75bd98a5e 100644
--- a/pavement.py
+++ b/pavement.py
@@ -95,10 +95,10 @@ finally:
#-----------------------------------
# Source of the release notes
-RELEASE_NOTES = 'doc/release/1.15.0-notes.rst'
+RELEASE_NOTES = 'doc/release/1.15.1-notes.rst'
# Start/end of the log (from git)
-LOG_START = 'v1.14.0'
+LOG_START = 'v1.15.0'
LOG_END = 'maintenance/1.15.x'
diff --git a/setup.py b/setup.py
index 4beb581e7..fed178e1b 100755
--- a/setup.py
+++ b/setup.py
@@ -64,7 +64,7 @@ Operating System :: MacOS
MAJOR = 1
MINOR = 15
-MICRO = 0
+MICRO = 1
ISRELEASED = True
VERSION = '%d.%d.%d' % (MAJOR, MINOR, MICRO)
@@ -368,13 +368,6 @@ def setup_package():
cmdclass={"sdist": sdist_checked},
python_requires='>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*',
zip_safe=False,
- entry_points={
- 'console_scripts': [
- 'f2py = numpy.f2py.__main__:main',
- 'conv-template = numpy.distutils.conv_template:main',
- 'from-template = numpy.distutils.from_template:main',
- ]
- },
)
if "--force" in sys.argv:
diff --git a/tools/cythonize.py b/tools/cythonize.py
index 6ef908958..9e2af840d 100755
--- a/tools/cythonize.py
+++ b/tools/cythonize.py
@@ -52,35 +52,39 @@ except NameError:
# Rules
#
def process_pyx(fromfile, tofile):
- try:
- from Cython.Compiler.Version import version as cython_version
- from distutils.version import LooseVersion
- if LooseVersion(cython_version) < LooseVersion('0.19'):
- raise Exception('Building %s requires Cython >= 0.19' % VENDOR)
-
- except ImportError:
- pass
-
flags = ['--fast-fail']
if tofile.endswith('.cxx'):
flags += ['--cplus']
try:
+ # try the cython in the installed python first (somewhat related to scipy/scipy#2397)
+ from Cython.Compiler.Version import version as cython_version
+ except ImportError:
+ # if that fails, use the one on the path, which might be the wrong version
try:
- r = subprocess.call(['cython'] + flags + ["-o", tofile, fromfile])
- if r != 0:
- raise Exception('Cython failed')
+ # Try the one on the path as a last resort
+ subprocess.check_call(
+ ['cython'] + flags + ["-o", tofile, fromfile])
except OSError:
- # There are ways of installing Cython that don't result in a cython
- # executable on the path, see gh-2397.
- r = subprocess.call([sys.executable, '-c',
- 'import sys; from Cython.Compiler.Main import '
- 'setuptools_main as main; sys.exit(main())'] + flags +
- ["-o", tofile, fromfile])
- if r != 0:
- raise Exception('Cython failed')
- except OSError:
- raise OSError('Cython needs to be installed')
+ raise OSError('Cython needs to be installed')
+ else:
+ # check the version, and invoke through python
+ from distutils.version import LooseVersion
+
+ # requiring the newest version on all pythons doesn't work, since
+ # we're relying on the version of the distribution cython. Add new
+ # versions as they become required for new python versions.
+ if sys.version_info[:2] < (3, 7):
+ required_version = LooseVersion('0.19')
+ else:
+ required_version = LooseVersion('0.28')
+
+ if LooseVersion(cython_version) < required_version:
+ raise RuntimeError('Building {} requires Cython >= {}'.format(
+ VENDOR, required_version))
+ subprocess.check_call(
+ [sys.executable, '-m', 'cython'] + flags + ["-o", tofile, fromfile])
+
def process_tempita_pyx(fromfile, tofile):
import npy_tempita as tempita