Datasets:

Alex-cpu0814
/

CLB-SWE-bench

instance_id string	repo string	base_commit string	problem_statement string	image unknown	cohort string	patch string	test_patch string	FAIL_TO_PASS list	PASS_TO_PASS list
clb-pyc-002	scipy/scipy	ff177d92b79167eb5de593c9de41d3ceb97ab189	interpolation.zoom incorrect output for certain cases I found the behaviour of zoom to be incorrect when working with 3D arrays for nearest neighbour interpolation. for example, try the following: ``` x = numpy.zeros(32, 32, 11) x[12, 16, 8] = 1 y = interpolation.zoom(x, 4, order=0) ``` and when I check to see at `y...	{ "image_id": "sha256:a06dba0866df6cc6a1b517fb2516808a1afb412e1ced4adb6fec3518c33cc617", "pull_reference": "yutu0814/pyc-case-002-scipy@sha256:a06dba0866df6cc6a1b517fb2516808a1afb412e1ced4adb6fec3518c33cc617" }	python50	diff --git a/scipy/ndimage/interpolation.py b/scipy/ndimage/interpolation.py index 8f5f1bc..2e85cdf 100644 --- a/scipy/ndimage/interpolation.py +++ b/scipy/ndimage/interpolation.py @@ -597,7 +597,7 @@ def affine_transform(input, matrix, offset=0.0, output_shape=None, "SciPy 0.18.0." ) _nd...	diff --git a/scipy/ndimage/tests/test_interpolation.py b/scipy/ndimage/tests/test_interpolation.py index 6563210..389c0ad 100644 --- a/scipy/ndimage/tests/test_interpolation.py +++ b/scipy/ndimage/tests/test_interpolation.py @@ -1107,19 +1107,45 @@ class TestNdimageInterpolation: out = ndimage.zoom(arr, zoom) ...	[ "scipy/ndimage/tests/test_interpolation.py::TestNdimageInterpolation::test_zoom_grid_by_int_order0[nearest-zoom0-shape0]", "scipy/ndimage/tests/test_interpolation.py::TestNdimageInterpolation::test_zoom_grid_by_int_order0[nearest-zoom0-shape1]", "scipy/ndimage/tests/test_interpolation.py::TestNdimageInterpolati...	[ "scipy/ndimage/tests/test_interpolation.py::TestNdimageInterpolation::test_boundaries[nearest-expected_value0]", "scipy/ndimage/tests/test_interpolation.py::TestNdimageInterpolation::test_boundaries2[grid-wrap-expected_value2]", "scipy/ndimage/tests/test_interpolation.py::TestNdimageInterpolation::test_boundary...
clb-pyc-007	numpy/numpy	fc2518ba6b11fc52b0ff477b9e83576be90562d8	NumPy's array-allocation failure path raises _ArrayMemoryError and returns immediately, bypassing the common failure cleanup and leaking dtype references on every failed allocation. Route this path through the shared cleanup while preserving the formatted allocation error.	{ "image_id": "sha256:ddbe5866e7eec2a3e12f4ebf75adf5c83c154c8ac15f049f3039395c37a8c617", "pull_reference": "yutu0814/pyc-case-007-numpy@sha256:ddbe5866e7eec2a3e12f4ebf75adf5c83c154c8ac15f049f3039395c37a8c617" }	python50	diff --git a/numpy/core/src/multiarray/ctors.c b/numpy/core/src/multiarray/ctors.c index 502ab0e..beee985 100644 --- a/numpy/core/src/multiarray/ctors.c +++ b/numpy/core/src/multiarray/ctors.c @@ -869,7 +869,7 @@ discover_dimensions(PyObject obj, int maxndim, npy_intp *d, int check_it, return 0; } -static PyO...	diff --git a/numpy/core/tests/test_multiarray.py b/numpy/core/tests/test_multiarray.py index 2edcc68..86a8cff 100644 --- a/numpy/core/tests/test_multiarray.py +++ b/numpy/core/tests/test_multiarray.py @@ -845,6 +845,13 @@ class TestCreation: assert_raises(ValueError, np.zeros, shape, dtype=np.int8) as...	[ "numpy/core/tests/test_multiarray.py::TestCreation::test_malloc_fails" ]	[ "numpy/core/tests/test_multiarray.py::TestCreation::test_zeros" ]
clb-pyc-010	numpy/numpy	5e8ad11b75245caf2d158eacf369b011ef262795	Several ndarray methods return a newly converted Python/NumPy scalar when a caller supplies a zero-dimensional out array. They must return the exact out object by identity, consistently with higher-dimensional outputs.	{ "image_id": "sha256:9c6264f39867c2376935e2c989a26c328eadb1b0f813d66291a224c84971e790", "pull_reference": "yutu0814/pyc-case-010-numpy@sha256:9c6264f39867c2376935e2c989a26c328eadb1b0f813d66291a224c84971e790" }	python50	diff --git a/numpy/core/src/multiarray/methods.c b/numpy/core/src/multiarray/methods.c index 8a659fa..262514e 100644 --- a/numpy/core/src/multiarray/methods.c +++ b/numpy/core/src/multiarray/methods.c @@ -117,8 +117,15 @@ array_take(PyArrayObject self, PyObject args, PyObject *kwds) ...	diff --git a/numpy/core/tests/test_multiarray.py b/numpy/core/tests/test_multiarray.py index f36c27c..a698370 100644 --- a/numpy/core/tests/test_multiarray.py +++ b/numpy/core/tests/test_multiarray.py @@ -1582,6 +1582,11 @@ class TestMethods: # gh-12031, caused SEGFAULT assert_raises(TypeError, oned.c...	[ "numpy/core/tests/test_multiarray.py::TestMethods::test_choose", "numpy/core/tests/test_multiarray.py::TestMethods::test_round", "numpy/core/tests/test_multiarray.py::TestMethods::test_trace", "numpy/core/tests/test_multiarray.py::TestArgmax::test_ret_is_out[0]", "numpy/core/tests/test_multiarray.py::TestAr...	[ "numpy/core/tests/test_multiarray.py::TestTake::test_clip", "numpy/core/tests/test_multiarray.py::TestArgmax::test_output_shape", "numpy/core/tests/test_multiarray.py::TestMethods::test_trace_subclass" ]
clb-pyc-011	numpy/numpy	2acfd9851b6a5246e5e5e3faa97c9e728e88f8a9	ndarray.searchsorted documents its required value argument as v, but the C method parser exposes the keyword as keys. Calling searchsorted(v=...) therefore raises a TypeError instead of accepting the documented keyword.	{ "image_id": "sha256:08f623a56a982260b08f7c3f5bfedf171de71ab39d2022e893e403887fd93873", "pull_reference": "yutu0814/pyc-case-011-numpy@sha256:08f623a56a982260b08f7c3f5bfedf171de71ab39d2022e893e403887fd93873" }	python50	diff --git a/numpy/core/src/multiarray/methods.c b/numpy/core/src/multiarray/methods.c index e5845f2..ae26bbd 100644 --- a/numpy/core/src/multiarray/methods.c +++ b/numpy/core/src/multiarray/methods.c @@ -1469,7 +1469,7 @@ array_argpartition(PyArrayObject self, PyObject args, PyObject kwds) static PyObject array...	diff --git a/numpy/core/tests/test_multiarray.py b/numpy/core/tests/test_multiarray.py index c4f1368..bf1fcc7 100644 --- a/numpy/core/tests/test_multiarray.py +++ b/numpy/core/tests/test_multiarray.py @@ -2161,6 +2161,8 @@ class TestMethods: msg = "Test real searchsorted with nans, side='r'" b = a.sea...	[ "numpy/core/tests/test_multiarray.py::TestMethods::test_searchsorted" ]	[ "numpy/core/tests/test_multiarray.py::TestMethods::test_searchsorted_unicode", "numpy/core/tests/test_multiarray.py::TestMethods::test_searchsorted_with_sorter" ]
clb-pyc-013	numpy/numpy	663b161074580a340201da1765e3618c086ff8dc	numpy.ravel_multi_index does not reject non-empty indices when one dimension is zero. Depending on mode, Base returns without the required ValueError or performs division by zero and terminates with SIGFPE. Empty index arrays must remain valid.	{ "image_id": "sha256:19d9e4c60528969fa655ade3622e48b0c85c508ccd6249e801d6781bef11f508", "pull_reference": "yutu0814/pyc-case-013-numpy@sha256:19d9e4c60528969fa655ade3622e48b0c85c508ccd6249e801d6781bef11f508" }	python50	diff --git a/numpy/core/src/multiarray/compiled_base.c b/numpy/core/src/multiarray/compiled_base.c index c380676..055d3e6 100644 --- a/numpy/core/src/multiarray/compiled_base.c +++ b/numpy/core/src/multiarray/compiled_base.c @@ -942,6 +942,20 @@ ravel_multi_index_loop(int ravel_ndim, npy_intp *ravel_dims, char inv...	diff --git a/numpy/lib/tests/test_index_tricks.py b/numpy/lib/tests/test_index_tricks.py index a5cdda0..dbe445c 100644 --- a/numpy/lib/tests/test_index_tricks.py +++ b/numpy/lib/tests/test_index_tricks.py @@ -175,6 +175,24 @@ class TestRavelUnravelIndex(object): assert_raises_regex( ValueError, "o...	[ "numpy/lib/tests/test_index_tricks.py::TestRavelUnravelIndex::test_empty_array_ravel[clip]", "numpy/lib/tests/test_index_tricks.py::TestRavelUnravelIndex::test_empty_array_ravel[wrap]" ]	[ "numpy/lib/tests/test_index_tricks.py::TestRavelUnravelIndex::test_big_indices", "numpy/lib/tests/test_index_tricks.py::TestRavelUnravelIndex::test_dtypes" ]
clb-pyc-014	numpy/numpy	495d352bf325f44d78001f059d625123e49f027e	viewing an array with a fieldless structured dtype does not update the dtype: As discovered in #14310 , viewing an array with a fieldless structured dtype does not update the dtype/itemsize: ```python >>> a = np.zeros(2, dtype={'names':[], 'formats':[], 'offsets':[], 'itemsize':8}) >>> b = a.view(np.dtype([])) >>...	{ "image_id": "sha256:8ec3a832740cfffca716ebf9a7a1b9b324d57ca877843e324a74f53f49942c4d", "pull_reference": "yutu0814/pyc-case-014-numpy@sha256:8ec3a832740cfffca716ebf9a7a1b9b324d57ca877843e324a74f53f49942c4d" }	python50	diff --git a/doc/release/upcoming_changes/14393.c_api.rst b/doc/release/upcoming_changes/14393.c_api.rst new file mode 100644 index 0000000..0afd275 --- /dev/null +++ b/doc/release/upcoming_changes/14393.c_api.rst @@ -0,0 +1,5 @@ +PyDataType_ISUNSIZED(descr) now returns False for structured datatypes +-----------------...	diff --git a/numpy/core/tests/test_dtype.py b/numpy/core/tests/test_dtype.py index f60eab6..f5ca775 100644 --- a/numpy/core/tests/test_dtype.py +++ b/numpy/core/tests/test_dtype.py @@ -419,6 +419,31 @@ class TestRecord(object): assert_raises(ValueError, np.dtype, {'formats': ['i4', 'i4'], 'f0'...	[ "numpy/core/tests/test_dtype.py::TestRecord::test_fieldless_views" ]	[ "numpy/core/tests/test_dtype.py::TestRecord::test_partial_dict", "numpy/core/tests/test_dtype.py::TestSubarray::test_single_subarray" ]
clb-pyc-015	numpy/numpy	965ea2ff417bcb285beca5c36cd02a8790a3d8f6	BUG: np.lexsort MemoryError on empty array with non-standard strides Numpy 1.17.0 raises MemoryError when using `lexsort` on an empty array with non-standard `strides`. If `strides` is the natural one, or if there is >= 1 element in the input, then it works as expected. ### Reproducing code example: ```python im...	{ "image_id": "sha256:f2da0afcaca3b41ce053ae0355187005b364e3490eda7dbeecac6561e03d5967", "pull_reference": "yutu0814/pyc-case-015-numpy@sha256:f2da0afcaca3b41ce053ae0355187005b364e3490eda7dbeecac6561e03d5967" }	python50	diff --git a/numpy/core/src/multiarray/item_selection.c b/numpy/core/src/multiarray/item_selection.c index 762563e..19de04a 100644 --- a/numpy/core/src/multiarray/item_selection.c +++ b/numpy/core/src/multiarray/item_selection.c @@ -1456,8 +1456,8 @@ PyArray_LexSort(PyObject sort_keys, int axis) / Now we can c...	diff --git a/numpy/core/tests/test_regression.py b/numpy/core/tests/test_regression.py index 944d053..c5289f6 100644 --- a/numpy/core/tests/test_regression.py +++ b/numpy/core/tests/test_regression.py @@ -436,6 +436,32 @@ class TestRegression(object): assert_raises(KeyError, np.lexsort, BuggySequence()) + ...	[ "numpy/core/tests/test_regression.py::TestRegression::test_lexsort_zerolen_custom_strides", "numpy/core/tests/test_regression.py::TestRegression::test_lexsort_zerolen_custom_strides_2d" ]	[ "numpy/core/tests/test_regression.py::TestRegression::test_lexsort", "numpy/core/tests/test_regression.py::TestRegression::test_lexsort_invalid_sequence" ]
clb-pyc-022	numpy/numpy	99953e494aa3be5ae8385d8461b9e4dfbeec43ec	Creating an array from an object with an invalid __array_interface__ can corrupt the reference count of the cached dtype object on failure paths. Invalid shape or strides metadata should raise the expected exception without decreasing the global dtype reference count or triggering CPython reference-count errors.	{ "image_id": "sha256:7e54bbcd8594c941e1ee9e41ea15905787d0bca6fb8085b4523d5069737d6de8", "pull_reference": "yutu0814/pyc-case-022-numpy@sha256:7e54bbcd8594c941e1ee9e41ea15905787d0bca6fb8085b4523d5069737d6de8" }	python50	diff --git a/numpy/core/src/multiarray/ctors.c b/numpy/core/src/multiarray/ctors.c index 63bf537..b2e329d 100644 --- a/numpy/core/src/multiarray/ctors.c +++ b/numpy/core/src/multiarray/ctors.c @@ -2500,6 +2500,11 @@ PyArray_FromInterface(PyObject *origin) &PyArray_Type, dtype, n, dims, N...	diff --git a/numpy/core/tests/test_multiarray.py b/numpy/core/tests/test_multiarray.py index a67a291..77534c1 100644 --- a/numpy/core/tests/test_multiarray.py +++ b/numpy/core/tests/test_multiarray.py @@ -7009,12 +7009,11 @@ class TestArrayAttributeDeletion(object): assert_raises(AttributeError, delat...	[ "numpy/core/tests/test_multiarray.py::TestArrayInterface::test_scalar_interface[val6-iface6-ValueError]", "numpy/core/tests/test_multiarray.py::TestArrayInterface::test_scalar_interface[val8-iface8-ValueError]", "numpy/core/tests/test_multiarray.py::TestArrayInterface::test_scalar_interface[val9-iface9-TypeErro...	[ "numpy/core/tests/test_multiarray.py::test_interface_no_shape", "numpy/core/tests/test_multiarray.py::test_array_interface_itemsize" ]
clb-pyc-023	numpy/numpy	70b773e4015b4fbb61bc1f7bdffc9cc789d58e94	np.place warning: WRITEBACKIFCOPY detected in array_dealloc Hello there, I'm having a problem with getting a runtime warning: /.../.virtualenv/python_3_env/lib/python3.6/site-packages/numpy/lib/function_base.py:1725: RuntimeWarning: WRITEBACKIFCOPY detected in array_dealloc. Required call to PyArray_ResolveWrite...	{ "image_id": "sha256:8b841335373b60b3e3aa4c1cb856876881e173ce982971adaf302df454690fdf", "pull_reference": "yutu0814/pyc-case-023-numpy@sha256:8b841335373b60b3e3aa4c1cb856876881e173ce982971adaf302df454690fdf" }	python50	diff --git a/numpy/core/src/multiarray/compiled_base.c b/numpy/core/src/multiarray/compiled_base.c index 88924a8..625028b 100644 --- a/numpy/core/src/multiarray/compiled_base.c +++ b/numpy/core/src/multiarray/compiled_base.c @@ -328,6 +328,7 @@ arr_insert(PyObject NPY_UNUSED(self), PyObject args, PyObject *kwdict...	diff --git a/numpy/core/tests/test_multiarray.py b/numpy/core/tests/test_multiarray.py index 77534c1..241f8e4 100644 --- a/numpy/core/tests/test_multiarray.py +++ b/numpy/core/tests/test_multiarray.py @@ -7729,6 +7729,8 @@ class TestWritebackIfCopy(object): # uses arr_insert np.place(a, a>2, [44...	[ "numpy/core/tests/test_multiarray.py::TestWritebackIfCopy::test_insert_noncontiguous" ]	[ "numpy/core/tests/test_multiarray.py::TestWritebackIfCopy::test_put_noncontiguous", "numpy/core/tests/test_multiarray.py::TestWritebackIfCopy::test_putmask_noncontiguous" ]
clb-pyc-027	numpy/numpy	0fd5f2506bf2f41b023392c945312e5a1a3eb819	np.unravel_index() does not accept empty inputs I would expect a tuple of empty outputs back. I get the following: ``` >>> np.unravel_index([], (10, 12)) Traceback (most recent call last): File "<stdin>", line 1, in <module> TypeError: Iterator operand 0 dtype could not be cast from dtype('float64') to dtype('int64'...	{ "image_id": "sha256:71d2efe092c6ee64b8a0a6ef40ee58ca656c90a6a43fbd8fd3aa2f35833dfc02", "pull_reference": "yutu0814/pyc-case-027-numpy@sha256:71d2efe092c6ee64b8a0a6ef40ee58ca656c90a6a43fbd8fd3aa2f35833dfc02" }	python50	diff --git a/numpy/core/src/multiarray/compiled_base.c b/numpy/core/src/multiarray/compiled_base.c index 1e0c1eb..d80d165 100644 --- a/numpy/core/src/multiarray/compiled_base.c +++ b/numpy/core/src/multiarray/compiled_base.c @@ -832,17 +832,63 @@ fail: return NULL; } +static const char *EMPTY_SEQUENCE_E...	diff --git a/numpy/lib/tests/test_index_tricks.py b/numpy/lib/tests/test_index_tricks.py index 3246f68..028bba3 100644 --- a/numpy/lib/tests/test_index_tricks.py +++ b/numpy/lib/tests/test_index_tricks.py @@ -77,6 +77,26 @@ class TestRavelUnravelIndex(object): [[3, 6, 6], [4, 5, 1]]) assert_...	[ "numpy/lib/tests/test_index_tricks.py::TestRavelUnravelIndex::test_empty_indices" ]	[ "numpy/lib/tests/test_index_tricks.py::TestRavelUnravelIndex::test_big_indices", "numpy/lib/tests/test_index_tricks.py::TestRavelUnravelIndex::test_dtypes" ]
clb-pyc-031	numpy/numpy	b65b21c397381351965bf3f590054d2bccdd03d2	choose does not broadcast index array appropriately (Trac #925) _Original ticket http://projects.scipy.org/numpy/ticket/925 on 2008-10-03 by @teoliphant, assigned to unknown._ The advertised behavior of choose(choices, sequence_of_arrays) is that the choices array and all the arrays in the sequence must be broadcastab...	{ "image_id": "sha256:d485b6f5f151ad2c42c3c32e32f97d01a66e10ed307a21112efd85cb523ef363", "pull_reference": "yutu0814/pyc-case-031-numpy@sha256:d485b6f5f151ad2c42c3c32e32f97d01a66e10ed307a21112efd85cb523ef363" }	python50	diff --git a/numpy/core/code_generators/numpy_api_order.txt b/numpy/core/code_generators/numpy_api_order.txt index bebc531..ff629d6 100644 --- a/numpy/core/code_generators/numpy_api_order.txt +++ b/numpy/core/code_generators/numpy_api_order.txt @@ -170,3 +170,4 @@ PyArray_SearchsideConverter PyArray_CheckAxis PyArray...	diff --git a/numpy/core/tests/test_multiarray.py b/numpy/core/tests/test_multiarray.py index 50a0205..ccfbe35 100644 --- a/numpy/core/tests/test_multiarray.py +++ b/numpy/core/tests/test_multiarray.py @@ -946,6 +946,26 @@ class TestSummarization(TestCase): assert repr(A) == reprA +class TestChoose(TestCase...	[ "test_multiarray.TestChoose.test_broadcast1", "test_multiarray.TestChoose.test_broadcast2" ]	[ "test_multiarray.TestChoose.test_basic" ]
clb-pyc-034	scipy/scipy	9529e47630be8f2345fd3d54302f248ce309d8cd	BUG: odeint crashes via lsoda instead of giving an error for zero timestep Reproducable problem, [reported in SO](https://stackoverflow.com/questions/47776535/no-error-message-scipy-odeint-spyder-kernel-died-restarting) ``` from scipy.integrate import odeint import numpy as np t = np.linspace(0,0,10) def func(x)...	{ "image_id": "sha256:5d4300ef80a0fcbfd8e290284f0e291b61cd1fa1a585f7c8bdb059fd1eb4ad6d", "pull_reference": "yutu0814/pyc-case-034-scipy@sha256:5d4300ef80a0fcbfd8e290284f0e291b61cd1fa1a585f7c8bdb059fd1eb4ad6d" }	python50	diff --git a/scipy/integrate/_odepackmodule.c b/scipy/integrate/_odepackmodule.c index 80bfadb..b141a23 100644 --- a/scipy/integrate/_odepackmodule.c +++ b/scipy/integrate/_odepackmodule.c @@ -497,6 +497,7 @@ odepack_odeint(PyObject dummy, PyObject args, PyObject *kwdict) npy_intp out_sz = 0, dims[2]; int k...	diff --git a/scipy/integrate/tests/test_integrate.py b/scipy/integrate/tests/test_integrate.py index aa8620e..22d5bba 100644 --- a/scipy/integrate/tests/test_integrate.py +++ b/scipy/integrate/tests/test_integrate.py @@ -805,3 +805,31 @@ def test_odeint_bad_shapes(): # shape of array returned by badjac(x, t) is no...	[ "scipy/integrate/tests/test_integrate.py::test_repeated_t_values" ]	[ "scipy/integrate/tests/test_integrate.py::test_odeint_trivial_time", "scipy/integrate/tests/test_integrate.py::test_odeint_bad_shapes" ]
clb-pyc-037	scipy/scipy	bf05e8d3412e2d96ab6735b6935e2a65f2620c30	scipy.ndimage.label crash on 64-bit linux (Trac #742) _Original ticket http://projects.scipy.org/scipy/ticket/742 on 2008-09-23 by trac user usovalx, assigned to unknown._ It appears that ndimage.label is bugged for 64-bit linux builds. So far I was able to trigger the bug by using reasonably large 3-d datasets. Samp...	{ "image_id": "sha256:04dff5e59cea830266f4137be5ca38e2333c9668c2880e6f6f542c7188cd8328", "pull_reference": "yutu0814/pyc-case-037-scipy@sha256:04dff5e59cea830266f4137be5ca38e2333c9668c2880e6f6f542c7188cd8328" }	python50	diff --git a/scipy/ndimage/src/ni_measure.c b/scipy/ndimage/src/ni_measure.c index cfd4d4d..1aa27d9 100644 --- a/scipy/ndimage/src/ni_measure.c +++ b/scipy/ndimage/src/ni_measure.c @@ -132,7 +132,7 @@ int NI_Label(PyArrayObject* input, PyArrayObject* strct, Int32 neighbor = 0; /* iterate over ...	diff --git a/scipy/ndimage/tests/test_regression.py b/scipy/ndimage/tests/test_regression.py index a824679..28d7553 100644 --- a/scipy/ndimage/tests/test_regression.py +++ b/scipy/ndimage/tests/test_regression.py @@ -16,5 +16,19 @@ def test_zoom_output_shape(): x = np.arange(12).reshape((3,4)) ndimage.zoom(x,...	[ "scipy/ndimage/tests/test_regression.py::test_ticket_742" ]	[ "scipy/ndimage/tests/test_regression.py::test_byte_order_median", "scipy/ndimage/tests/test_regression.py::test_zoom_output_shape" ]
clb-pyc-041	scipy/scipy	e13278e712ac33c6110b5d48a8da0acfa7768b71	Crash of interpolate.splprep(task=-1) Running the circle example but with task = -1 parameter for splprep http://docs.scipy.org/doc/scipy/reference/tutorial/interpolate.html#spline-interpolation-in-1-d-procedural-interpolate-splxxx I got a crash in firpack.py at <code> t,c,o = _fitpack._parcur(ravel(transpose(x)),w,...	{ "image_id": "sha256:162ec26dfa62fdd3ffa1a0dc4976961257e6796f803eb39e11be871f1dc4faf9", "pull_reference": "yutu0814/pyc-case-041-scipy@sha256:162ec26dfa62fdd3ffa1a0dc4976961257e6796f803eb39e11be871f1dc4faf9" }	python50	diff --git a/scipy/interpolate/src/_fitpackmodule.c b/scipy/interpolate/src/_fitpackmodule.c index 52cd383..ba44a49 100644 --- a/scipy/interpolate/src/_fitpackmodule.c +++ b/scipy/interpolate/src/_fitpackmodule.c @@ -499,7 +499,7 @@ fitpack_parcur(PyObject dummy, PyObject args) if (ap_t == NULL \|\| ap_c == NULL) ...	diff --git a/scipy/interpolate/tests/test_fitpack.py b/scipy/interpolate/tests/test_fitpack.py index 7b90c36..c2179a4 100644 --- a/scipy/interpolate/tests/test_fitpack.py +++ b/scipy/interpolate/tests/test_fitpack.py @@ -459,6 +459,19 @@ def test_splev_der_k(): assert_allclose(splev(x, (t, c, k), k), splev(x, tck2...	[ "scipy/interpolate/tests/test_fitpack.py::test_splprep_segfault" ]	[ "scipy/interpolate/tests/test_fitpack.py::test_dblint", "scipy/interpolate/tests/test_fitpack.py::test_splev_der_k" ]
clb-pyc-042	scipy/scipy	8c7973148c5dea4a28e0e082f8c1f182313b72c1	scipy.signal.sepfir2d reads random memory when given even sized hrow or hcol `scipy.signal.sepfir2d` reads random memory when given even sized `hrow` or `hcol`. Deep down in the source code for `sepfir2` there is a comment than only odd-lengths are acceptable: https://github.com/scipy/scipy/blob/d06791710acae119e09982...	{ "image_id": "sha256:73a308a6d0431d6f5d682647daf0828549209bc26bf7e79d2bff7e205d7d2bcb", "pull_reference": "yutu0814/pyc-case-042-scipy@sha256:73a308a6d0431d6f5d682647daf0828549209bc26bf7e79d2bff7e205d7d2bcb" }	python50	diff --git a/scipy/signal/splinemodule.c b/scipy/signal/splinemodule.c index 58f1aa7..1c10218 100644 --- a/scipy/signal/splinemodule.c +++ b/scipy/signal/splinemodule.c @@ -214,11 +214,13 @@ static char doc_FIRsepsym2d[] = "out = sepfir2d(input, hrow, hcol)\n" " Parameters\n" " ----------\n" " input : ndarr...	diff --git a/scipy/signal/tests/test_bsplines.py b/scipy/signal/tests/test_bsplines.py index 57524eb..4d77918 100644 --- a/scipy/signal/tests/test_bsplines.py +++ b/scipy/signal/tests/test_bsplines.py @@ -4,9 +4,11 @@ from numpy import array from numpy.testing import (assert_equal, assert_a...	[ "scipy/signal/tests/test_bsplines.py::test_sepfir2d_invalid_filter" ]	[ "scipy/signal/tests/test_bsplines.py::TestBSplines::test_spline_filter", "scipy/signal/tests/test_bsplines.py::TestBSplines::test_bspline" ]
clb-pyc-044	scipy/scipy	fc6b387bc0c51b5b252712584580b4f0975498fb	segfault from map_coordinates I received segmentation faults when running `map_coordinates` with `order=1` on a large array when attempting to access data that was past the 4GB level if the input data array type was `float32`. I have verified that changing from `float32` -> `float64` or using `order=3` both avoid the ...	{ "image_id": "sha256:46e9a7fa9636a89717b530dbde3a6da3e2c67050a18b70847b78b4316e051831", "pull_reference": "yutu0814/pyc-case-044-scipy@sha256:46e9a7fa9636a89717b530dbde3a6da3e2c67050a18b70847b78b4316e051831" }	python50	diff --git a/scipy/ndimage/src/ni_filters.c b/scipy/ndimage/src/ni_filters.c index 96c2e799..c5e70562 100644 --- a/scipy/ndimage/src/ni_filters.c +++ b/scipy/ndimage/src/ni_filters.c @@ -639,9 +639,10 @@ exit: return PyErr_Occurred() ? 0 : 1; } -static double NI_Select(double *buffer, int min, int max, int rank...	diff --git a/scipy/ndimage/tests/test_ndimage.py b/scipy/ndimage/tests/test_ndimage.py index bfe9161d..9c505ae7 100644 --- a/scipy/ndimage/tests/test_ndimage.py +++ b/scipy/ndimage/tests/test_ndimage.py @@ -32,11 +32,12 @@ from __future__ import division, print_function, absolute_import import warnings import math ...	[ "scipy/ndimage/tests/test_ndimage.py::TestNdimage::test_map_coordinates_large_data" ]	[ "scipy/ndimage/tests/test_ndimage.py::TestNdimage::test_map_coordinates01", "scipy/ndimage/tests/test_ndimage.py::TestNdimage::test_map_coordinates02" ]
clb-pyc-046	tskit-dev/tskit	eb8b4aebe42f39f7e536a603e8cd25d9cf104e22	.newick() raises: LibraryError: Supplied buffer if too small Hi all, I'm getting a buffer size error when calling `.newick()` on a tree with large Ne. The problem seems to be derived from C code in `._ll_sparse_tree.get_newick()`. I see in the trees.py code that if you provide a `node_labels` argument to `.newick()...	{ "image_id": "sha256:94b0040be34ac50a0b340ee284e51a414a4d1efa8696791ae661d0cbeea80743", "pull_reference": "yutu0814/pyc-case-046-tskit@sha256:94b0040be34ac50a0b340ee284e51a414a4d1efa8696791ae661d0cbeea80743" }	python50	diff --git a/python/CHANGELOG.rst b/python/CHANGELOG.rst index 60500c9..55d36c7 100644 --- a/python/CHANGELOG.rst +++ b/python/CHANGELOG.rst @@ -83,6 +83,9 @@ In development Bugfixes +- :issue:`453` - Fix LibraryError when ``tree.newick()`` is called with large node time + values (:user:`jeromekelleher`, :pr:...	diff --git a/python/tests/test_highlevel.py b/python/tests/test_highlevel.py index e76bb98..1014aa9 100644 --- a/python/tests/test_highlevel.py +++ b/python/tests/test_highlevel.py @@ -1887,6 +1887,18 @@ class TestTree(HighLevelTestCase): for tree in ts.trees(): self.verify_newick(tree) ...	[ "python/tests/test_highlevel.py::TestTree::test_newick_large_times", "python/tests/test_lowlevel.py::TestTree::test_newick_interface" ]	[ "python/tests/test_highlevel.py::TestTree::test_newick", "python/tests/test_lowlevel.py::TestTree::test_newick_precision" ]
clb-pyc-048	scipy/scipy	018986cb0260881827c6ef33cd2d804f54e39c85	`scipy.signal.{medfilt,medfilt2d}` hit "Windows fatal exception: access violation" with SciPy 1.7.0 on Windows Since yesterday with the new SciPy 1.7.0 release, CuPy's Windows CI is experiencing the following fatal error (cupy/cupy#5364) and the CI was interrupted. #### Reproducing code example: The failing tests c...	{ "image_id": "sha256:064bfb4045a30796b74a723138efe20e24f2be4e0aa19f4ef6a3a644cce2ce85", "pull_reference": "yutu0814/pyc-case-048-scipy@sha256:064bfb4045a30796b74a723138efe20e24f2be4e0aa19f4ef6a3a644cce2ce85" }	python50	diff --git a/scipy/signal/sigtoolsmodule.c b/scipy/signal/sigtoolsmodule.c index e39e0c15..2fd6fcf4 100644 --- a/scipy/signal/sigtoolsmodule.c +++ b/scipy/signal/sigtoolsmodule.c @@ -856,14 +856,14 @@ PyObject PyArray_OrderFilterND(PyObject op1, PyObject op2, int order) { int is1, os; char op, ap1_ptr, ap2_pt...	diff --git a/scipy/signal/tests/test_signaltools.py b/scipy/signal/tests/test_signaltools.py index 2b5cc6a0..bd64fcff 100644 --- a/scipy/signal/tests/test_signaltools.py +++ b/scipy/signal/tests/test_signaltools.py @@ -1062,6 +1062,17 @@ class TestMedFilt: assert_equal(signal.medfilt(in_typed).dtype, dtype) ...	[ "scipy/signal/tests/test_signaltools.py::TestMedFilt::test_invalid_dtypes[float16]" ]	[ "scipy/signal/tests/test_signaltools.py::TestMedFilt::test_basic", "scipy/signal/tests/test_signaltools.py::TestMedFilt::test_none" ]
clb-pyc-049	CheetahTemplate3/cheetah3	c86628cad04edc5167f9a9c8999abc62c6558e7b	Calling Template.getVar() with a string beginning with "$" crashes The compiled C version of NameMapper does not handle names beginning with "$" correctly. Specifically on CentOS 6.10, this command results in a Segmentation fault: `python -c "from Cheetah.Template import Template; print(Template(source='blah').getVar(...	{ "image_id": "sha256:9b8ca8cf610a15b88d144cab71608125a57d9fa61fd9d41664684b023d991629", "pull_reference": "yutu0814/pyc-case-049-cheetah@sha256:9b8ca8cf610a15b88d144cab71608125a57d9fa61fd9d41664684b023d991629" }	python50	diff --git a/Cheetah/c/_namemapper.c b/Cheetah/c/_namemapper.c index 6c472b9..15ab99a 100644 --- a/Cheetah/c/_namemapper.c +++ b/Cheetah/c/_namemapper.c @@ -268,11 +268,16 @@ static PyObject *namemapper_valueForName(PYARGS) createNameCopyAndChunks(); - theValue = PyNamemapper_valueForName(obj, nameChunks, n...	diff --git a/Cheetah/Tests/SyntaxAndOutput.py b/Cheetah/Tests/SyntaxAndOutput.py index c6fa39d..a2ee63c 100755 --- a/Cheetah/Tests/SyntaxAndOutput.py +++ b/Cheetah/Tests/SyntaxAndOutput.py @@ -3049,6 +3049,12 @@ class GetVar(OutputTest): # Template.getVar() self.verify("$getVar('$bogus', 1234)",...	[ "Cheetah/Tests/SyntaxAndOutput.py::GetVar::test6" ]	[ "Cheetah/Tests/SyntaxAndOutput.py::GetVar::test1", "Cheetah/Tests/SyntaxAndOutput.py::GetVar::test2" ]
clb-pyc-053	python-pillow/Pillow	09605ff48e582fda6870a2c4c519650321f3f8de	ImageDraw only uses lower 8-bits of colors in I;16 images ### What did you do? `ImageDraw` on an image with mode `I;16` fails to work correctly. When given a fill color (in the range 0...0xFFFF), it draws the shapes correctly, but uses a color with the lower 8-bits repeated twice. ### What did you expect to happe...	{ "image_id": "sha256:fa3a641ce23062b01e43021ba76fa77574047cb21422ef0daa18c642dd7c7ccc", "pull_reference": "yutu0814/pyc-case-053-pillow@sha256:fa3a641ce23062b01e43021ba76fa77574047cb21422ef0daa18c642dd7c7ccc" }	python50	diff --git a/src/libImaging/Draw.c b/src/libImaging/Draw.c index 82f290b..0ccf22d 100644 --- a/src/libImaging/Draw.c +++ b/src/libImaging/Draw.c @@ -41,6 +41,7 @@ #define FLOOR(v) ((v) >= 0.0 ? (int)(v) : (int)floor(v)) #define INK8(ink) ((UINT8 )ink) +#define INK16(ink) ((UINT16 )ink) /* * Rounds around z...	diff --git a/Tests/images/imagedraw_rectangle_I.png b/Tests/images/imagedraw_rectangle_I.png index 4e94f6943dd8eaac1d3be2b930b835358f1caaf9..a75f12c2e98f417e662f2661eab980b45b61cde1 100644 GIT binary patch delta 102 zcmdnWxP@_oidD6zi(^Q\|oVT}j@-`TVusS+?xo;%mkkXypn)XS5\|Jl7d3_x%o{o2RL zk9X7`yK1#D=Yq82<NO@\|GZW)Y6@Q<(XkGsTq...	[ "Tests/test_imagedraw.py::test_point_I16", "Tests/test_imagefont.py::test_I16[Layout.BASIC]" ]	[ "Tests/test_imagedraw.py::test_sanity", "Tests/test_imagefont.py::test_font_properties[Layout.BASIC]" ]
clb-pyc-054	python-pillow/Pillow	c683f048eb117c572b8b4eee47a324aca165fea1	Fatal Python error for negative radius in ImageFilter.BoxBlur() Hi, Python crashes without an exception when a negative radius is passed into ImageFilter.BoxBlur(). This is the error message using spyder. ``` Fatal Python error: Aborted Main thread: Current thread 0x00007fbab679b740 (most recent call first)...	{ "image_id": "sha256:418f1ca7c0fe0f3525592d3635a6e06f4e7b45060ad3b0a492f177230eba26fe", "pull_reference": "yutu0814/pyc-case-054-pillow@sha256:418f1ca7c0fe0f3525592d3635a6e06f4e7b45060ad3b0a492f177230eba26fe" }	python50	diff --git a/src/PIL/ImageFilter.py b/src/PIL/ImageFilter.py index 59e2c18..63d6dcf 100644 --- a/src/PIL/ImageFilter.py +++ b/src/PIL/ImageFilter.py @@ -183,6 +183,9 @@ class BoxBlur(MultibandFilter): name = "BoxBlur" def __init__(self, radius): + if radius < 0: + msg = "radius must be >= ...	diff --git a/Tests/test_image_filter.py b/Tests/test_image_filter.py index cfe46b6..a2ef228 100644 --- a/Tests/test_image_filter.py +++ b/Tests/test_image_filter.py @@ -24,6 +24,7 @@ from .helper import assert_image_equal, hopper ImageFilter.ModeFilter, ImageFilter.GaussianBlur, ImageFilter.G...	[ "Tests/test_image_filter.py::test_invalid_box_blur_filter" ]	[ "Tests/test_box_blur.py::test_radius_0", "Tests/test_box_blur.py::test_radius_1" ]
clb-pyc-056	python-pillow/Pillow	6798c87caf25cedf0cef19245e7db1656aed8602	Saving an image with JPEG2000 format doesn't accept Path object ### What did you do? Save a JPEG 2000 image using a `Path` argument: ```python from pathlib import Path from PIL import Image img = Image.new('RGBA', (5, 5), '#00000000') img.save(Path('image.jp2'), format='JPEG2000') ``` ### What did you exp...	{ "image_id": "sha256:abeb4e9ddc951a5c0e9d63f1d5d0c23a8c0bcb668606cfab3e67adde60b76970", "pull_reference": "yutu0814/pyc-case-056-pillow@sha256:abeb4e9ddc951a5c0e9d63f1d5d0c23a8c0bcb668606cfab3e67adde60b76970" }	python50	diff --git a/src/PIL/Image.py b/src/PIL/Image.py index 34959cd..5d565f6 100644 --- a/src/PIL/Image.py +++ b/src/PIL/Image.py @@ -2180,12 +2180,12 @@ class Image: filename = "" open_fp = False - if isPath(fp): - filename = fp - open_fp = True - elif isinstance(fp, ...	diff --git a/Tests/test_image.py b/Tests/test_image.py index c4e6f8a..2d661a9 100644 --- a/Tests/test_image.py +++ b/Tests/test_image.py @@ -149,10 +149,11 @@ class TestImage: assert im.mode == "RGB" assert im.size == (128, 128) - temp_file = str(tmp_path / "temp.jpg") - ...	[ "Tests/test_image.py::TestImage::test_pathlib" ]	[ "Tests/test_image.py::TestImage::test_fp_name", "Tests/test_image.py::TestImage::test_tempfile" ]
clb-pyc-057	python-pillow/Pillow	f0679aff4d43dbd595b98501dc7a8420550bf4e8	Pillow fails/hangs on PSD hidden background layer Depending on file content, Pillow: - fails with "cannot identify image file"; - fails with "Truncated File Read"; - just hangs inside the `PsdImagePlugin._layerinfo` function because it thinks there are 65534 layers. See attachment: [pillow-psd-fail.zip](https:/...	{ "image_id": "sha256:9ab77c7426fba99462ea9c55a3a1139fbc455ab39d47d17023fe49a897d7b96a", "pull_reference": "yutu0814/pyc-case-057-pillow@sha256:9ab77c7426fba99462ea9c55a3a1139fbc455ab39d47d17023fe49a897d7b96a" }	python50	diff --git a/src/PIL/PsdImagePlugin.py b/src/PIL/PsdImagePlugin.py index e7b8846..04b21e3 100644 --- a/src/PIL/PsdImagePlugin.py +++ b/src/PIL/PsdImagePlugin.py @@ -22,6 +22,7 @@ from . import Image, ImageFile, ImagePalette from ._binary import i8 from ._binary import i16be as i16 from ._binary import i32be as i32 +...	diff --git a/Tests/images/negative_layer_count.psd b/Tests/images/negative_layer_count.psd new file mode 100644 index 0000000000000000000000000000000000000000..b111c2d5675ab2eec3bf2df52d2af603e006d2a3 GIT binary patch literal 5492 zcmeHKO=uHA7=4?hq{hTl%%O;f98ym$hrt5u0koK5Yh;(dT_Iwq@meOiDdtN5N~U z2Y(<~_29*`UOjjf1i>E=Z...	[ "Tests/test_file_psd.py::test_n_frames" ]	[ "Tests/test_file_psd.py::test_sanity", "Tests/test_file_psd.py::test_eoferror" ]
clb-pyc-058	python-pillow/Pillow	b21508798ab548ed90eb4d6bf01db14b880c9c91	JPEG Adobe APP14 color-transform metadata should use the twelfth payload byte. RGB and CMYK samples should report transforms 1 and 2; a shortened APP14 payload should retain Adobe metadata without inventing an absent transform value. Normal JPEG decoding and CMYK roundtripping should remain correct.	{ "image_id": "sha256:3fbe631ca2fb660e8850b0f3dedfdab10187317ad1520063edca003dbce331d5", "pull_reference": "yutu0814/pyc-case-058-pillow@sha256:3fbe631ca2fb660e8850b0f3dedfdab10187317ad1520063edca003dbce331d5" }	python50	diff --git a/src/PIL/JpegImagePlugin.py b/src/PIL/JpegImagePlugin.py index 48e0de5..f449a2d 100644 --- a/src/PIL/JpegImagePlugin.py +++ b/src/PIL/JpegImagePlugin.py @@ -140,8 +140,8 @@ def APP(self, marker): self.info["adobe"] = i16(s, 5) # extract Adobe custom properties try: - ad...	diff --git a/Tests/images/truncated_app14.jpg b/Tests/images/truncated_app14.jpg new file mode 100644 index 0000000000000000000000000000000000000000..232a4c35f8c5ac8cba5c873e698f7415165ccfb3 GIT binary patch literal 29342 zcmeIb2Urx#(l9)`OU_v(Nshu2BubE+b4G%\|F0h1M!V&}p#ekxcgMb*245A`Q5K#mH zQIwojvLHz$2_oO@B8umpbM86s\|Gf9T...	[ "Tests/test_file_jpeg.py::TestFileJpeg::test_adobe_transform" ]	[ "Tests/test_file_jpeg.py::TestFileJpeg::test_sanity", "Tests/test_file_jpeg.py::TestFileJpeg::test_cmyk" ]
clb-pyc-060	python-pillow/Pillow	d0612030a0ba7aed533e1f9115bbf4bd1019f48e	Segmentation fault when creating gradient images with mode "F" <!-- Thank you for reporting an issue. Follow these guidelines to ensure your issue is handled properly. If you have a ... 1. General question: consider asking the question on Stack Overflow with the python-imaging-library tag: * http...	{ "image_id": "sha256:e5558c76835739376be27654c041f0fc5743476226db4150d772cfa124ff1be8", "pull_reference": "yutu0814/pyc-case-060-pillow@sha256:e5558c76835739376be27654c041f0fc5743476226db4150d772cfa124ff1be8" }	python50	diff --git a/src/libImaging/Fill.c b/src/libImaging/Fill.c index e4e4b43..f720602 100644 --- a/src/libImaging/Fill.c +++ b/src/libImaging/Fill.c @@ -76,8 +76,21 @@ ImagingFillLinearGradient(const char *mode) { return NULL; } - for (y = 0; y < 256; y++) { - memset(im->image8[y], (unsigned char)...	diff --git a/Tests/test_image.py b/Tests/test_image.py index 3fa071b..30d093e 100644 --- a/Tests/test_image.py +++ b/Tests/test_image.py @@ -524,7 +524,7 @@ class TestImage: # Arrange target_file = "Tests/images/linear_gradient.png" - for mode in ["L", "P"]: + for mode in ["L", "P", "I...	[ "Tests/test_image.py::TestImage::test_linear_gradient", "Tests/test_image.py::TestImage::test_radial_gradient" ]	[ "Tests/test_image.py::TestImage::test_linear_gradient_wrong_mode", "Tests/test_image.py::TestImage::test_radial_gradient_wrong_mode" ]

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CLB SWE-bench

CLB SWE-bench measures software repair on 72 cross-language bugs. The test split contains 50 Python–C cases, 11 Java–C cases with upstream-derived tests, and 11 Java–C cases with tests written by the CLB authors.

Fields

Field	Description
`instance_id`	Stable CLB identifier in the form `clb-pyc-NNN` or `clb-javac-NNN`.
`repo`	Upstream repository in `owner/name` format.
`base_commit`	Source revision at which the repair starts.
`problem_statement`	Bug description provided to the repair agent.
`image`	Object with the Docker `pull_reference` pinned by digest and its expected `image_id`.
`cohort`	One of `python50`, `java_upstream11`, and `java_author11`.
`patch`	Reference repair, stored as a Git diff.
`test_patch`	Git diff applied by the evaluator to add or modify tests.
`FAIL_TO_PASS`	Target tests that a successful repair must pass.
`PASS_TO_PASS`	Regression tests that must pass after applying the candidate.

Evaluation protocol

For candidate generation, provide the selected problem_statement and an isolated checkout at base_commit. The evaluator starts from the pinned image, applies the candidate and test_patch, then checks both test lists. The patch field provides the reference repair for Gold controls.

To load the local data before publishing the dataset, run the following from this directory.

from datasets import load_dataset

tasks = load_dataset("json", data_files={"test": "test.jsonl"}, split="test")

The release exposes the reference and test patches for reproducibility. Use the generation input projection above when running a benchmark whose agent must work from the problem statement and Base.

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