cudaPackages_12: 12.0.0 -> 12.0.1 #215229
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10.rebuild-darwin: 11-100
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Result of 5 packages marked as broken and skipped:
11 packages failed to build:
16 packages built:
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I did have to skip building
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$ nix build nixpkgs/master#python310Packages.dalle-mini --cores 1 -j 1 -L
...
python3.10-wandb> Executing pytestCheckPhase
python3.10-wandb> ============================= test session starts ==============================
python3.10-wandb> platform linux -- Python 3.10.9, pytest-7.2.0, pluggy-1.0.0 -- /nix/store/0pyymzxf7n0fzpaqnvwv92ab72v3jq8d-python3-3.10.9/bin/python3.10
python3.10-wandb> cachedir: .pytest_cache
python3.10-wandb> rootdir: /tmp/nix-shell.mYjVYj/nix-build-python3.10-wandb-0.13.9.drv-0/source, configfile: pytest.ini, testpaths: tests
python3.10-wandb> plugins: mock-3.10.0, xdist-3.1.0
python3.10-wandb> [gw0] linux Python 3.10.9 cwd: /tmp/nix-shell.mYjVYj/nix-build-python3.10-wandb-0.13.9.drv-0/source
python3.10-wandb> [gw0] Python 3.10.9 (main, Dec 6 2022, 18:44:57) [GCC 12.2.0]
python3.10-wandb> gw0 [0]0 items / 1 error
python3.10-wandb> scheduling tests via LoadScheduling
python3.10-wandb> ==================================== ERRORS ====================================
python3.10-wandb> ________________________ ERROR collecting test session _________________________
python3.10-wandb> /nix/store/0pyymzxf7n0fzpaqnvwv92ab72v3jq8d-python3-3.10.9/lib/python3.10/importlib/__init__.py:126: in import_module
python3.10-wandb> return _bootstrap._gcd_import(name[level:], package, level)
python3.10-wandb> <frozen importlib._bootstrap>:1050: in _gcd_import
python3.10-wandb> ???
python3.10-wandb> <frozen importlib._bootstrap>:1027: in _find_and_load
python3.10-wandb> ???
python3.10-wandb> <frozen importlib._bootstrap>:1006: in _find_and_load_unlocked
python3.10-wandb> ???
python3.10-wandb> <frozen importlib._bootstrap>:688: in _load_unlocked
python3.10-wandb> ???
python3.10-wandb> /nix/store/c5qvrk78x6ak9fmlzz5pmfvnhf0lj2g7-python3.10-pytest-7.2.0/lib/python3.10/site-packages/_pytest/assertion/rewrite.py:168: in exec_module
python3.10-wandb> exec(co, module.__dict__)
python3.10-wandb> tests/unit_tests_old/conftest.py:42: in <module>
python3.10-wandb> from . import utils
python3.10-wandb> tests/unit_tests_old/utils/__init__.py:1: in <module>
python3.10-wandb> from .dummy_data import (
python3.10-wandb> tests/unit_tests_old/utils/dummy_data.py:6: in <module>
python3.10-wandb> from bokeh.plotting import figure
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/plotting/__init__.py:73: in <module>
python3.10-wandb> from ..io import curdoc; curdoc
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/io/__init__.py:24: in <module>
python3.10-wandb> from .doc import curdoc
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/io/doc.py:29: in <module>
python3.10-wandb> from .state import curstate
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/io/state.py:54: in <module>
python3.10-wandb> from ..resources import Resources, ResourcesMode
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/resources.py:761: in <module>
python3.10-wandb> CDN = Resources(mode="cdn")
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/resources.py:324: in __init__
python3.10-wandb> cdn = self._cdn_urls()
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/resources.py:386: in _cdn_urls
python3.10-wandb> return _get_cdn_urls(self.version, self.minified, self.legacy)
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/resources.py:719: in _get_cdn_urls
python3.10-wandb> sri_hashes = get_sri_hashes_for_version(version)
python3.10-wandb> /nix/store/6rb2kq8an8w7pw9h34rn2sizniba1h14-python3.10-bokeh-2.4.3/lib/python3.10/site-packages/bokeh/resources.py:177: in get_sri_hashes_for_version
python3.10-wandb> return hashes[version]
python3.10-wandb> E KeyError: '3.0.3'
python3.10-wandb> =============================== warnings summary ===============================
python3.10-wandb> ../../../../nix/store/c5qvrk78x6ak9fmlzz5pmfvnhf0lj2g7-python3.10-pytest-7.2.0/lib/python3.10/site-packages/_pytest/config/__init__.py:1294
python3.10-wandb> ../../../../nix/store/c5qvrk78x6ak9fmlzz5pmfvnhf0lj2g7-python3.10-pytest-7.2.0/lib/python3.10/site-packages/_pytest/config/__init__.py:1294
python3.10-wandb> /nix/store/c5qvrk78x6ak9fmlzz5pmfvnhf0lj2g7-python3.10-pytest-7.2.0/lib/python3.10/site-packages/_pytest/config/__init__.py:1294: PytestConfigWarning: Unknown config option: timeout
python3.10-wandb> self._warn_or_fail_if_strict(f"Unknown config option: {key}\n")
python3.10-wandb> -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
python3.10-wandb> =========================== short test summary info ============================
python3.10-wandb> ERROR - KeyError: '3.0.3'
python3.10-wandb> ========================= 2 warnings, 1 error in 1.69s =========================
python3.10-wandb> /nix/store/b09v23lirgvci3wzszh22mbkdfj0h0yq-stdenv-linux/setup: line 1582: pop_var_context: head of shell_variables not a function context
error: builder for '/nix/store/wyh6d3gs0i9j31vh0f7z3gl0xmzhyskz-python3.10-wandb-0.13.9.drv' failed with exit code 1
error: 1 dependencies of derivation '/nix/store/9479h2j1lw46mrs1pnlajlr90rf3801v-python3.10-dalle-mini-0.1.1.drv' failed to build |
|
$ nix build nixpkgs/master#python310Packages.dm-sonnet --cores 1 -j 1 -L
...
python3.10-apache-beam> Executing pipInstallPhase
python3.10-apache-beam> /tmp/nix-shell.mYjVYj/nix-build-python3.10-apache-beam-2.44.0.drv-0/source/sdks/python/dist /tmp/nix-shell.mYjVYj/nix-build-python3.10-apache-beam-2.44.0.drv-0/source/sdks/python
python3.10-apache-beam> Processing ./apache_beam-2.44.0-cp310-cp310-linux_x86_64.whl
python3.10-apache-beam> Requirement already satisfied: cloudpickle~=2.2.0 in /nix/store/nlxmdgwzy5dc9bjj4mzbm37kjbb8vmaj-python3.10-cloudpickle-2.2.0/lib/python3.10/site-packages (from apache-beam==2.44.0) (2.2.0)
python3.10-apache-beam> Requirement already satisfied: httplib2 in /nix/store/60xixawdl2pszdhrv4l500w8ngzs0jxr-python3.10-httplib2-0.21.0/lib/python3.10/site-packages (from apache-beam==2.44.0) (0.21.0)
python3.10-apache-beam> Requirement already satisfied: regex>=2020.6.8 in /nix/store/frg8yggd7dkyxny1bxzw7i34byqf77dk-python3.10-regex-2022.10.31/lib/python3.10/site-packages (from apache-beam==2.44.0) (2022.10.31)
python3.10-apache-beam> Requirement already satisfied: typing-extensions>=3.7.0 in /nix/store/9mg6pdlxahp4c0pimbxw5zp517hv06sl-python3.10-typing-extensions-4.4.0/lib/python3.10/site-packages (from apache-beam==2.44.0) (4.4.0)
python3.10-apache-beam> Requirement already satisfied: fasteners<1.0,>=0.3 in /nix/store/53h7hm7abal2d85glzlylfqyps3l5nmx-python3.10-fasteners-0.18/lib/python3.10/site-packages (from apache-beam==2.44.0) (0.18)
python3.10-apache-beam> ERROR: Could not find a version that satisfies the requirement pyarrow<10.0.0,>=0.15.1 (from apache-beam) (from versions: none)
python3.10-apache-beam> ERROR: No matching distribution found for pyarrow<10.0.0,>=0.15.1
python3.10-apache-beam>
error: builder for '/nix/store/l35gg3f9pjmc3rnd8ci5ibckyvgxa1g9-python3.10-apache-beam-2.44.0.drv' failed with exit code 1
error: 1 dependencies of derivation '/nix/store/ksr8pdyqs2wz9m68fw4kx224055bvyvw-python3.10-tensorflow-datasets-4.8.0.drv' failed to build
error: 1 dependencies of derivation '/nix/store/4hl6kbx5ii24m37gn85dv5905yyc7ks6-python3.10-dm-sonnet-2.0.0.drv' failed to build |
|
[connorbaker@fedora ~]$ nix build nixpkgs/master#python310Packages.elegy --cores 1 -j 1 -L
...
python3.10-treex> Executing pytestCheckPhase
python3.10-treex> ============================= test session starts ==============================
python3.10-treex> platform linux -- Python 3.10.9, pytest-7.2.0, pluggy-1.0.0
python3.10-treex> rootdir: /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source
python3.10-treex> plugins: hypothesis-6.61.0
python3.10-treex> collected 150 items
python3.10-treex> tests/test_optimizer.py .. [ 1%]
python3.10-treex> tests/test_rng_seq.py .. [ 2%]
python3.10-treex> tests/test_treex.py .....F.....FF........................... [ 29%]
python3.10-treex> tests/losses/cosine_similarity_test.py ... [ 31%]
python3.10-treex> tests/losses/crossentropy_test.py . [ 32%]
python3.10-treex> tests/losses/huber_test.py ... [ 34%]
python3.10-treex> tests/losses/loss_test.py .. [ 35%]
python3.10-treex> tests/losses/mean_absolute_error_test.py .. [ 36%]
python3.10-treex> tests/losses/mean_absolute_percentage_error_test.py .. [ 38%]
python3.10-treex> tests/losses/mean_squared_error_test.py .. [ 39%]
python3.10-treex> tests/losses/mean_squared_logarithmic_error_test.py ... [ 41%]
python3.10-treex> tests/metrics/test_accuracy.py .. [ 42%]
python3.10-treex> tests/metrics/test_loss_and_logs.py .. [ 44%]
python3.10-treex> tests/metrics/test_losses.py .... [ 46%]
python3.10-treex> tests/metrics/test_mean_absolute_error.py ..... [ 50%]
python3.10-treex> tests/metrics/test_mean_square_error.py ..... [ 53%]
python3.10-treex> tests/metrics/test_metric.py .... [ 56%]
python3.10-treex> tests/metrics/test_metrics.py .... [ 58%]
python3.10-treex> tests/nn/test_conv.py .......... [ 65%]
python3.10-treex> tests/nn/test_dropout.py ...... [ 69%]
python3.10-treex> tests/nn/test_embed.py ..... [ 72%]
python3.10-treex> tests/nn/test_flax_module.py ... [ 74%]
python3.10-treex> tests/nn/test_linear.py ....... [ 79%]
python3.10-treex> tests/nn/test_mlp.py .. [ 80%]
python3.10-treex> tests/nn/test_norm.py .................... [ 94%]
python3.10-treex> tests/nn/test_recurrent.py ....... [ 98%]
python3.10-treex> tests/nn/test_sequential.py .. [100%]
python3.10-treex> =================================== FAILURES ===================================
python3.10-treex> ____________________________ TestTreex.test_is_tree ____________________________
python3.10-treex> self = <test_treex.TestTreex object at 0x7ffddfe4d750>
python3.10-treex> def test_is_tree(self):
python3.10-treex> mlp = MLP(2, 3, 5)
python3.10-treex> @jax.jit
python3.10-treex> def idfn(x):
python3.10-treex> return x
python3.10-treex> assert not isinstance(mlp.linear1.w, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linear1.b, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linear1.n, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linear2.w, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linear2.b, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linear1.n, jnp.DeviceArray)
python3.10-treex> mlp = idfn(mlp)
python3.10-treex> > assert isinstance(mlp.linear1.w, jnp.DeviceArray)
python3.10-treex> E assert False
python3.10-treex> E + where False = isinstance(Array([[0.11763399, 0.90304446, 0.6951432 ],\n [0.8850366 , 0.554873 , 0.00401835]], dtype=float32), <class 'jaxlib.xla_extension.DeviceArrayBase'>)
python3.10-treex> E + where Array([[0.11763399, 0.90304446, 0.6951432 ],\n [0.8850366 , 0.554873 , 0.00401835]], dtype=float32) = Linear {\n b: jax.ArrayImpl((3,), float32), Parameter\n din: 2, int\n dout: 3...32), State\n name: "linear1", str\n w: jax.ArrayImpl((2, 3), float32), Parameter\n}.w
python3.10-treex> E + where Linear {\n b: jax.ArrayImpl((3,), float32), Parameter\n din: 2, int\n dout: 3...32), State\n name: "linear1", str\n w: jax.ArrayImpl((2, 3), float32), Parameter\n} = MLP {\n din: 2, int\n dmid: 3, int\n dout: 5,... str\n w: jax.ArrayImpl((3, 5), float32), Parameter\n },\n name: "mlp", str\n}.linear1
python3.10-treex> E + and <class 'jaxlib.xla_extension.DeviceArrayBase'> = jnp.DeviceArray
python3.10-treex> tests/test_treex.py:116: AssertionError
python3.10-treex> _____________________________ TestTreex.test_list ______________________________
python3.10-treex> self = <test_treex.TestTreex object at 0x7ffddfe4dae0>
python3.10-treex> def test_list(self):
python3.10-treex> class LinearList(tx.Module):
python3.10-treex> params: tp.List[np.ndarray] = tx.Parameter.node()
python3.10-treex> def __init__(self, din, dout, name="linear"):
python3.10-treex> self.din = din
python3.10-treex> self.dout = dout
python3.10-treex> self.params = [
python3.10-treex> np.random.uniform(size=(din, dout)),
python3.10-treex> np.random.uniform(size=(dout,)),
python3.10-treex> ]
python3.10-treex> self.name = name
python3.10-treex> linear = LinearList(2, 3, name="mlp")
python3.10-treex> @jax.jit
python3.10-treex> def idfn(x):
python3.10-treex> return x
python3.10-treex> assert not isinstance(linear.params[0], jnp.DeviceArray)
python3.10-treex> assert not isinstance(linear.params[1], jnp.DeviceArray)
python3.10-treex> linear = idfn(linear)
python3.10-treex> > assert isinstance(linear.params[0], jnp.DeviceArray)
python3.10-treex> E AssertionError: assert False
python3.10-treex> E + where False = isinstance(Array([[0.00982457, 0.4286033 , 0.1121355 ],\n [0.4537867 , 0.04986208, 0.22139844]], dtype=float32), <class 'jaxlib.xla_extension.DeviceArrayBase'>)
python3.10-treex> E + where <class 'jaxlib.xla_extension.DeviceArrayBase'> = jnp.DeviceArray
python3.10-treex> tests/test_treex.py:235: AssertionError
python3.10-treex> ___________________________ TestTreex.test_treelist ____________________________
python3.10-treex> self = <test_treex.TestTreex object at 0x7ffddfe4d600>
python3.10-treex> def test_treelist(self):
python3.10-treex> class MLP(tx.Module):
python3.10-treex> linears: tp.List[Linear]
python3.10-treex> def __init__(self, din, dmid, dout, name="mlp"):
python3.10-treex> self.linears = [
python3.10-treex> Linear(din, dmid, name="linear1"),
python3.10-treex> Linear(dmid, dout, name="linear2"),
python3.10-treex> ]
python3.10-treex> mlp = MLP(2, 3, 5)
python3.10-treex> @jax.jit
python3.10-treex> def idfn(x):
python3.10-treex> return x
python3.10-treex> assert not isinstance(mlp.linears[0].w, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linears[0].b, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linears[0].n, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linears[1].w, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linears[1].b, jnp.DeviceArray)
python3.10-treex> assert not isinstance(mlp.linears[1].n, jnp.DeviceArray)
python3.10-treex> mlp = idfn(mlp)
python3.10-treex> > assert isinstance(mlp.linears[0].w, jnp.DeviceArray)
python3.10-treex> E assert False
python3.10-treex> E + where False = isinstance(Array([[0.20045704, 0.9409938 , 0.80153227],\n [0.04653431, 0.14996895, 0.16462907]], dtype=float32), <class 'jaxlib.xla_extension.DeviceArrayBase'>)
python3.10-treex> E + where Array([[0.20045704, 0.9409938 , 0.80153227],\n [0.04653431, 0.14996895, 0.16462907]], dtype=float32) = Linear {\n b: jax.ArrayImpl((3,), float32), Parameter\n din: 2, int\n dout: 3...32), State\n name: "linear1", str\n w: jax.ArrayImpl((2, 3), float32), Parameter\n}.w
python3.10-treex> E + and <class 'jaxlib.xla_extension.DeviceArrayBase'> = jnp.DeviceArray
python3.10-treex> tests/test_treex.py:265: AssertionError
python3.10-treex> =============================== warnings summary ===============================
python3.10-treex> treex/metrics/mean_absolute_error.py:31
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/metrics/mean_absolute_error.py:31: DeprecationWarning: invalid escape sequence '\s'
python3.10-treex> """
python3.10-treex> treex/metrics/mean_square_error.py:31
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/metrics/mean_square_error.py:31: DeprecationWarning: invalid escape sequence '\s'
python3.10-treex> """
python3.10-treex> ../../../../nix/store/apx41ng1f596261dwm1pms6m5a4sc1hs-python3.10-tensorflow-2.11.0/lib/python3.10/site-packages/tensorflow/__init__.py:29
python3.10-treex> /nix/store/apx41ng1f596261dwm1pms6m5a4sc1hs-python3.10-tensorflow-2.11.0/lib/python3.10/site-packages/tensorflow/__init__.py:29: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
python3.10-treex> import distutils as _distutils
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_apply_updates
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_return_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/optimizer.py:79: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> params = jax.tree_leaves(params)
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_apply_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_optimizer.py:24: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> jax.tree_leaves(jax.tree_map(lambda x: jnp.mean(x**2), linear)), 0.0
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_apply_updates
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_return_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/optimizer.py:110: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> opt_grads, treedef = jax.tree_flatten(grads)
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_apply_updates
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_return_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/optimizer.py:111: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> opt_params = jax.tree_leaves(params)
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_apply_updates
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_return_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/optimizer.py:135: FutureWarning: jax.tree_unflatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_unflatten instead.
python3.10-treex> return jax.tree_unflatten(treedef, output)
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_apply_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_optimizer.py:37: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_apply_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_optimizer.py:43: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_return_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_optimizer.py:58: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> jax.tree_leaves(jax.tree_map(lambda x: jnp.mean(x**2), linear)), 0.0
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_return_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_optimizer.py:70: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/test_optimizer.py::TestOptreex::test_return_updates
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_optimizer.py:76: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/test_treex.py::TestTreex::test_flatten_nothing
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_treex.py:68: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> assert jax.tree_leaves(x) == [1, 2, 3]
python3.10-treex> tests/test_treex.py::TestTreex::test_flatten_nothing
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_treex.py:70: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> flat_with_nothing = jax.tree_flatten(x, lambda x: isinstance(x, tx.Nothing))[0]
python3.10-treex> tests/test_treex.py::TestTreex::test_flatten
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_treex.py:78: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(mlp)
python3.10-treex> tests/test_treex.py::TestTreex::test_flatten_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_treex.py:86: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(mlp)
python3.10-treex> tests/test_treex.py::TestTreex::test_flatten_slice_merging
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_treex.py:94: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> flat = jax.tree_flatten(mlp, lambda x: isinstance(x, tx.Nothing))[0]
python3.10-treex> tests/test_treex.py::TestTreex::test_is_tree
python3.10-treex> tests/test_treex.py::TestTreex::test_treelist
python3.10-treex> tests/test_treex.py::TestTreex::test_repr
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate
python3.10-treex> /nix/store/nv9a929c9yvqbp8i040fal36202gzfhw-python3.10-treeo-0.0.11/lib/python3.10/site-packages/treeo/api.py:226: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> flat, treedef = jax.tree_flatten(obj)
python3.10-treex> tests/test_treex.py::TestTreex::test_is_tree
python3.10-treex> tests/test_treex.py::TestTreex::test_treelist
python3.10-treex> tests/test_treex.py::TestTreex::test_repr
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate
python3.10-treex> /nix/store/nv9a929c9yvqbp8i040fal36202gzfhw-python3.10-treeo-0.0.11/lib/python3.10/site-packages/treeo/api.py:228: FutureWarning: jax.tree_unflatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_unflatten instead.
python3.10-treex> obj = jax.tree_unflatten(treedef, flat)
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate_inputs
python3.10-treex> tests/test_treex.py::TestTreex::test_uninitialized_tabulate
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/module.py:241: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> flat, _ = jax.tree_flatten(self)
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate_inputs
python3.10-treex> tests/test_treex.py::TestTreex::test_uninitialized_tabulate
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/utils.py:167: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> tree_types = jax.tree_flatten(
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate_inputs
python3.10-treex> tests/test_treex.py::TestTreex::test_uninitialized_tabulate
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/utils.py:375: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> count = sum((x.size if hasattr(x, "size") else 0 for x in jax.tree_leaves(obj)), 0)
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate
python3.10-treex> tests/test_treex.py::TestTreex::test_tabulate_inputs
python3.10-treex> tests/test_treex.py::TestTreex::test_uninitialized_tabulate
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/utils.py:377: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> (x.nbytes if hasattr(x, "nbytes") else 0 for x in jax.tree_leaves(obj)), 0
python3.10-treex> tests/test_treex.py::TestTreex::test_static_annotation
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/test_treex.py:475: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> assert len(jax.tree_leaves(mod)) == 2
python3.10-treex> tests/test_treex.py::TestTreex::test_auto_annotations_inserted
python3.10-treex> /nix/store/nv9a929c9yvqbp8i040fal36202gzfhw-python3.10-treeo-0.0.11/lib/python3.10/site-packages/treeo/tree.py:252: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> jax.tree_flatten(self)
python3.10-treex> tests/metrics/test_loss_and_logs.py::TestLossAndLogs::test_basic
python3.10-treex> tests/metrics/test_loss_and_logs.py::TestLossAndLogs::test_batch_loss
python3.10-treex> tests/metrics/test_losses.py::TestAuxLosses::test_basic
python3.10-treex> tests/metrics/test_losses.py::TestAuxLosses::test_named
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/metrics/losses.py:127: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> fields_info: tp.List[to.FieldInfo] = jax.tree_flatten(
python3.10-treex> tests/metrics/test_loss_and_logs.py::TestLossAndLogs::test_basic
python3.10-treex> tests/metrics/test_loss_and_logs.py::TestLossAndLogs::test_batch_loss
python3.10-treex> tests/metrics/test_metrics.py::TestAuxMetrics::test_basic
python3.10-treex> tests/metrics/test_metrics.py::TestAuxMetrics::test_named
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/treex/metrics/metrics.py:117: FutureWarning: jax.tree_flatten is deprecated, and will be removed in a future release. Use jax.tree_util.tree_flatten instead.
python3.10-treex> fields_info: tp.List[to.FieldInfo] = jax.tree_flatten(
python3.10-treex> tests/nn/test_conv.py::ConvTest::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_conv.py:147: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_conv.py::ConvTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_conv.py:125: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.Parameter))
python3.10-treex> tests/nn/test_conv.py::ConvTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_conv.py:129: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.State))
python3.10-treex> tests/nn/test_conv.py::ConvTest::test_tree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_conv.py:117: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module)
python3.10-treex> tests/nn/test_conv.py::ConvTransposeTest::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_conv.py:270: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_conv.py::ConvTransposeTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_conv.py:248: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.Parameter))
python3.10-treex> tests/nn/test_conv.py::ConvTransposeTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_conv.py:252: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.State))
python3.10-treex> tests/nn/test_conv.py::ConvTransposeTest::test_tree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_conv.py:240: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module)
python3.10-treex> tests/nn/test_dropout.py::DropoutTest::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_dropout.py:112: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_dropout.py::DropoutTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_dropout.py:87: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.Parameter))
python3.10-treex> tests/nn/test_dropout.py::DropoutTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_dropout.py:91: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.State))
python3.10-treex> tests/nn/test_dropout.py::DropoutTest::test_tree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_dropout.py:80: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module)
python3.10-treex> tests/nn/test_embed.py::TestEmbed::test_tree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_embed.py:97: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module)
python3.10-treex> tests/nn/test_embed.py::TestEmbed::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_embed.py:105: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.Parameter))
python3.10-treex> tests/nn/test_embed.py::TestEmbed::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_embed.py:109: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.State))
python3.10-treex> tests/nn/test_embed.py::TestEmbed::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_embed.py:127: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_flax_module.py::TestFlaxModule::test_pretrained_flax_module
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_flax_module.py:65: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_flax_module.py::TestFlaxModule::test_pretrained_flax_module
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_flax_module.py:72: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_flax_module.py::TestFlaxModule::test_pretrained_flax_module
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_flax_module.py:105: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_flax_module.py::TestFlaxModule::test_pretrained_flax_module_no_rng
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_flax_module.py:141: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_flax_module.py::TestFlaxModule::test_pretrained_flax_module_no_rng
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_flax_module.py:179: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_linear.py::LinearTest::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_linear.py:137: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_linear.py::LinearTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_linear.py:115: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.Parameter))
python3.10-treex> tests/nn/test_linear.py::LinearTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_linear.py:119: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.State))
python3.10-treex> tests/nn/test_linear.py::LinearTest::test_tree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_linear.py:107: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module)
python3.10-treex> tests/nn/test_norm.py::BatchNormTest::test_eval
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:186: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_norm.py::BatchNormTest::test_eval
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:193: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_norm.py::BatchNormTest::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:158: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_norm.py::BatchNormTest::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:165: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_norm.py::BatchNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:130: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.Parameter))
python3.10-treex> tests/nn/test_norm.py::BatchNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:133: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.BatchStat))
python3.10-treex> tests/nn/test_norm.py::BatchNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:136: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(
python3.10-treex> tests/nn/test_norm.py::BatchNormTest::test_tree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:122: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module)
python3.10-treex> tests/nn/test_norm.py::LayerNormTest::test_eval
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:331: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_norm.py::LayerNormTest::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:310: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_norm.py::LayerNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:282: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.Parameter))
python3.10-treex> tests/nn/test_norm.py::LayerNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:285: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.BatchStat))
python3.10-treex> tests/nn/test_norm.py::LayerNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:288: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(
python3.10-treex> tests/nn/test_norm.py::LayerNormTest::test_tree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:274: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module)
python3.10-treex> tests/nn/test_norm.py::GroupNormTest::test_eval
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:512: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_norm.py::GroupNormTest::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:491: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_norm.py::GroupNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:463: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.Parameter))
python3.10-treex> tests/nn/test_norm.py::GroupNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:466: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module.filter(tx.BatchStat))
python3.10-treex> tests/nn/test_norm.py::GroupNormTest::test_slice
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:469: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(
python3.10-treex> tests/nn/test_norm.py::GroupNormTest::test_tree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_norm.py:455: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> flat = jax.tree_leaves(module)
python3.10-treex> tests/nn/test_recurrent.py::TestGRU::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_recurrent.py:66: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> print(jax.tree_leaves(module))
python3.10-treex> tests/nn/test_recurrent.py::TestGRU::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_recurrent.py:67: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> print(jax.tree_leaves(module2))
python3.10-treex> tests/nn/test_recurrent.py::TestGRU::test_jit
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_recurrent.py:74: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> )
python3.10-treex> tests/nn/test_sequential.py::TestSequence::test_pytree
python3.10-treex> /tmp/nix-shell.mYjVYj/nix-build-python3.10-treex-0.6.11.drv-0/source/tests/nn/test_sequential.py:38: FutureWarning: jax.tree_leaves is deprecated, and will be removed in a future release. Use jax.tree_util.tree_leaves instead.
python3.10-treex> leaves = jax.tree_leaves(mlp)
python3.10-treex> -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
python3.10-treex> =========================== short test summary info ============================
python3.10-treex> FAILED tests/test_treex.py::TestTreex::test_is_tree - assert False
python3.10-treex> FAILED tests/test_treex.py::TestTreex::test_list - AssertionError: assert False
python3.10-treex> FAILED tests/test_treex.py::TestTreex::test_treelist - assert False
python3.10-treex> ================= 3 failed, 147 passed, 101 warnings in 25.12s =================
python3.10-treex> /nix/store/b09v23lirgvci3wzszh22mbkdfj0h0yq-stdenv-linux/setup: line 1582: pop_var_context: head of shell_variables not a function context
error: builder for '/nix/store/0f2skxjva1ri708y1v1jnhwqpk6x3kcr-python3.10-treex-0.6.11.drv' failed with exit code 1
error: 1 dependencies of derivation '/nix/store/cnh9sd55d67r9jsrn0ikqm6d2b0cknxm-python3.10-elegy-0.8.6.drv' failed to build |
|
[connorbaker@fedora Documents]$ nix build nixpkgs/master#python310Packages.scikit-tda --cores 1 -j 1 -L
...
python3.10-kmapper> Executing pytestCheckPhase
python3.10-kmapper> ============================= test session starts ==============================
python3.10-kmapper> platform linux -- Python 3.10.9, pytest-7.2.0, pluggy-1.0.0
python3.10-kmapper> rootdir: /tmp/nix-build-python3.10-kmapper-2.0.1.drv-0/source
python3.10-kmapper> collected 101 items
python3.10-kmapper> test/test_adapters.py ... [ 2%]
python3.10-kmapper> test/test_coverer.py ............F..... [ 20%]
python3.10-kmapper> test/test_drawing.py .. [ 22%]
python3.10-kmapper> test/test_mapper.py ....................F........F [ 52%]
python3.10-kmapper> test/test_nerve.py ...... [ 58%]
python3.10-kmapper> test/test_plotly.py ...... [ 64%]
python3.10-kmapper> test/test_visuals.py .................................... [100%]
python3.10-kmapper> =================================== FAILURES ===================================
python3.10-kmapper> __________________________ TestCover.test_radius_dist __________________________
python3.10-kmapper> self = <test.test_coverer.TestCover object at 0x7ffde868ad40>
python3.10-kmapper> def test_radius_dist(self):
python3.10-kmapper> test_cases = [
python3.10-kmapper> {"cubes": 1, "range": [0, 4], "overlap": 0.4, "radius": 10.0 / 3},
python3.10-kmapper> {"cubes": 1, "range": [0, 4], "overlap": 0.9, "radius": 20.0},
python3.10-kmapper> {"cubes": 2, "range": [-4, 4], "overlap": 0.5, "radius": 4.0},
python3.10-kmapper> {"cubes": 3, "range": [-4, 4], "overlap": 0.5, "radius": 2.666666666},
python3.10-kmapper> {"cubes": 10, "range": [-4, 4], "overlap": 0.5, "radius": 0.8},
python3.10-kmapper> {"cubes": 10, "range": [-4, 4], "overlap": 1.0, "radius": np.inf},
python3.10-kmapper> ]
python3.10-kmapper> for test_case in test_cases:
python3.10-kmapper> scaler = preprocessing.MinMaxScaler(feature_range=test_case["range"])
python3.10-kmapper> > data = scaler.fit_transform(np.arange(20).reshape(10, 2))
python3.10-kmapper> test/test_coverer.py:136:
python3.10-kmapper> _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/utils/_set_output.py:142: in wrapped
python3.10-kmapper> data_to_wrap = f(self, X, *args, **kwargs)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/base.py:859: in fit_transform
python3.10-kmapper> return self.fit(X, **fit_params).transform(X)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/preprocessing/_data.py:427: in fit
python3.10-kmapper> return self.partial_fit(X, y)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/preprocessing/_data.py:450: in partial_fit
python3.10-kmapper> self._validate_params()
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/base.py:581: in _validate_params
python3.10-kmapper> validate_parameter_constraints(
python3.10-kmapper> _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
python3.10-kmapper> parameter_constraints = {'clip': ['boolean'], 'copy': ['boolean'], 'feature_range': [<class 'tuple'>]}
python3.10-kmapper> params = {'clip': False, 'copy': True, 'feature_range': [0, 4]}
python3.10-kmapper> caller_name = 'MinMaxScaler'
python3.10-kmapper> def validate_parameter_constraints(parameter_constraints, params, caller_name):
python3.10-kmapper> """Validate types and values of given parameters.
python3.10-kmapper>
python3.10-kmapper> Parameters
python3.10-kmapper> ----------
python3.10-kmapper> parameter_constraints : dict or {"no_validation"}
python3.10-kmapper> If "no_validation", validation is skipped for this parameter.
python3.10-kmapper>
python3.10-kmapper> If a dict, it must be a dictionary `param_name: list of constraints`.
python3.10-kmapper> A parameter is valid if it satisfies one of the constraints from the list.
python3.10-kmapper> Constraints can be:
python3.10-kmapper> - an Interval object, representing a continuous or discrete range of numbers
python3.10-kmapper> - the string "array-like"
python3.10-kmapper> - the string "sparse matrix"
python3.10-kmapper> - the string "random_state"
python3.10-kmapper> - callable
python3.10-kmapper> - None, meaning that None is a valid value for the parameter
python3.10-kmapper> - any type, meaning that any instance of this type is valid
python3.10-kmapper> - an Options object, representing a set of elements of a given type
python3.10-kmapper> - a StrOptions object, representing a set of strings
python3.10-kmapper> - the string "boolean"
python3.10-kmapper> - the string "verbose"
python3.10-kmapper> - the string "cv_object"
python3.10-kmapper> - the string "missing_values"
python3.10-kmapper> - a HasMethods object, representing method(s) an object must have
python3.10-kmapper> - a Hidden object, representing a constraint not meant to be exposed to the user
python3.10-kmapper>
python3.10-kmapper> params : dict
python3.10-kmapper> A dictionary `param_name: param_value`. The parameters to validate against the
python3.10-kmapper> constraints.
python3.10-kmapper>
python3.10-kmapper> caller_name : str
python3.10-kmapper> The name of the estimator or function or method that called this function.
python3.10-kmapper> """
python3.10-kmapper> for param_name, param_val in params.items():
python3.10-kmapper> # We allow parameters to not have a constraint so that third party estimators
python3.10-kmapper> # can inherit from sklearn estimators without having to necessarily use the
python3.10-kmapper> # validation tools.
python3.10-kmapper> if param_name not in parameter_constraints:
python3.10-kmapper> continue
python3.10-kmapper> constraints = parameter_constraints[param_name]
python3.10-kmapper> if constraints == "no_validation":
python3.10-kmapper> continue
python3.10-kmapper> constraints = [make_constraint(constraint) for constraint in constraints]
python3.10-kmapper> for constraint in constraints:
python3.10-kmapper> if constraint.is_satisfied_by(param_val):
python3.10-kmapper> # this constraint is satisfied, no need to check further.
python3.10-kmapper> break
python3.10-kmapper> else:
python3.10-kmapper> # No constraint is satisfied, raise with an informative message.
python3.10-kmapper> # Ignore constraints that we don't want to expose in the error message,
python3.10-kmapper> # i.e. options that are for internal purpose or not officially supported.
python3.10-kmapper> constraints = [
python3.10-kmapper> constraint for constraint in constraints if not constraint.hidden
python3.10-kmapper> ]
python3.10-kmapper> if len(constraints) == 1:
python3.10-kmapper> constraints_str = f"{constraints[0]}"
python3.10-kmapper> else:
python3.10-kmapper> constraints_str = (
python3.10-kmapper> f"{', '.join([str(c) for c in constraints[:-1]])} or"
python3.10-kmapper> f" {constraints[-1]}"
python3.10-kmapper> )
python3.10-kmapper> > raise InvalidParameterError(
python3.10-kmapper> f"The {param_name!r} parameter of {caller_name} must be"
python3.10-kmapper> f" {constraints_str}. Got {param_val!r} instead."
python3.10-kmapper> )
python3.10-kmapper> E sklearn.utils._param_validation.InvalidParameterError: The 'feature_range' parameter of MinMaxScaler must be an instance of 'tuple'. Got [0, 4] instead.
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/utils/_param_validation.py:97: InvalidParameterError
python3.10-kmapper> __________________________ TestLens.test_sparse_array __________________________
python3.10-kmapper> self = <test.test_mapper.TestLens object at 0x7ffde841ed10>
python3.10-kmapper> def test_sparse_array(self):
python3.10-kmapper> mapper = KeplerMapper()
python3.10-kmapper> data = sparse.random(100, 10)
python3.10-kmapper> > lens = mapper.fit_transform(data)
python3.10-kmapper> test/test_mapper.py:282:
python3.10-kmapper> _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
python3.10-kmapper> kmapper/kmapper.py:361: in fit_transform
python3.10-kmapper> lens = self.project(
python3.10-kmapper> kmapper/kmapper.py:284: in project
python3.10-kmapper> X = scaler.fit_transform(X)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/utils/_set_output.py:142: in wrapped
python3.10-kmapper> data_to_wrap = f(self, X, *args, **kwargs)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/base.py:859: in fit_transform
python3.10-kmapper> return self.fit(X, **fit_params).transform(X)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/preprocessing/_data.py:427: in fit
python3.10-kmapper> return self.partial_fit(X, y)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/preprocessing/_data.py:466: in partial_fit
python3.10-kmapper> X = self._validate_data(
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/base.py:546: in _validate_data
python3.10-kmapper> X = check_array(X, input_name="X", **check_params)
python3.10-kmapper> _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
python3.10-kmapper> array = matrix([[0. ],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0.48069749],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0. ],
python3.10-kmapper> ... ],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0. ]])
python3.10-kmapper> accept_sparse = False
python3.10-kmapper> def check_array(
python3.10-kmapper> array,
python3.10-kmapper> accept_sparse=False,
python3.10-kmapper> *,
python3.10-kmapper> accept_large_sparse=True,
python3.10-kmapper> dtype="numeric",
python3.10-kmapper> order=None,
python3.10-kmapper> copy=False,
python3.10-kmapper> force_all_finite=True,
python3.10-kmapper> ensure_2d=True,
python3.10-kmapper> allow_nd=False,
python3.10-kmapper> ensure_min_samples=1,
python3.10-kmapper> ensure_min_features=1,
python3.10-kmapper> estimator=None,
python3.10-kmapper> input_name="",
python3.10-kmapper> ):
python3.10-kmapper> """Input validation on an array, list, sparse matrix or similar.
python3.10-kmapper>
python3.10-kmapper> By default, the input is checked to be a non-empty 2D array containing
python3.10-kmapper> only finite values. If the dtype of the array is object, attempt
python3.10-kmapper> converting to float, raising on failure.
python3.10-kmapper>
python3.10-kmapper> Parameters
python3.10-kmapper> ----------
python3.10-kmapper> array : object
python3.10-kmapper> Input object to check / convert.
python3.10-kmapper>
python3.10-kmapper> accept_sparse : str, bool or list/tuple of str, default=False
python3.10-kmapper> String[s] representing allowed sparse matrix formats, such as 'csc',
python3.10-kmapper> 'csr', etc. If the input is sparse but not in the allowed format,
python3.10-kmapper> it will be converted to the first listed format. True allows the input
python3.10-kmapper> to be any format. False means that a sparse matrix input will
python3.10-kmapper> raise an error.
python3.10-kmapper>
python3.10-kmapper> accept_large_sparse : bool, default=True
python3.10-kmapper> If a CSR, CSC, COO or BSR sparse matrix is supplied and accepted by
python3.10-kmapper> accept_sparse, accept_large_sparse=False will cause it to be accepted
python3.10-kmapper> only if its indices are stored with a 32-bit dtype.
python3.10-kmapper>
python3.10-kmapper> .. versionadded:: 0.20
python3.10-kmapper>
python3.10-kmapper> dtype : 'numeric', type, list of type or None, default='numeric'
python3.10-kmapper> Data type of result. If None, the dtype of the input is preserved.
python3.10-kmapper> If "numeric", dtype is preserved unless array.dtype is object.
python3.10-kmapper> If dtype is a list of types, conversion on the first type is only
python3.10-kmapper> performed if the dtype of the input is not in the list.
python3.10-kmapper>
python3.10-kmapper> order : {'F', 'C'} or None, default=None
python3.10-kmapper> Whether an array will be forced to be fortran or c-style.
python3.10-kmapper> When order is None (default), then if copy=False, nothing is ensured
python3.10-kmapper> about the memory layout of the output array; otherwise (copy=True)
python3.10-kmapper> the memory layout of the returned array is kept as close as possible
python3.10-kmapper> to the original array.
python3.10-kmapper>
python3.10-kmapper> copy : bool, default=False
python3.10-kmapper> Whether a forced copy will be triggered. If copy=False, a copy might
python3.10-kmapper> be triggered by a conversion.
python3.10-kmapper>
python3.10-kmapper> force_all_finite : bool or 'allow-nan', default=True
python3.10-kmapper> Whether to raise an error on np.inf, np.nan, pd.NA in array. The
python3.10-kmapper> possibilities are:
python3.10-kmapper>
python3.10-kmapper> - True: Force all values of array to be finite.
python3.10-kmapper> - False: accepts np.inf, np.nan, pd.NA in array.
python3.10-kmapper> - 'allow-nan': accepts only np.nan and pd.NA values in array. Values
python3.10-kmapper> cannot be infinite.
python3.10-kmapper>
python3.10-kmapper> .. versionadded:: 0.20
python3.10-kmapper> ``force_all_finite`` accepts the string ``'allow-nan'``.
python3.10-kmapper>
python3.10-kmapper> .. versionchanged:: 0.23
python3.10-kmapper> Accepts `pd.NA` and converts it into `np.nan`
python3.10-kmapper>
python3.10-kmapper> ensure_2d : bool, default=True
python3.10-kmapper> Whether to raise a value error if array is not 2D.
python3.10-kmapper>
python3.10-kmapper> allow_nd : bool, default=False
python3.10-kmapper> Whether to allow array.ndim > 2.
python3.10-kmapper>
python3.10-kmapper> ensure_min_samples : int, default=1
python3.10-kmapper> Make sure that the array has a minimum number of samples in its first
python3.10-kmapper> axis (rows for a 2D array). Setting to 0 disables this check.
python3.10-kmapper>
python3.10-kmapper> ensure_min_features : int, default=1
python3.10-kmapper> Make sure that the 2D array has some minimum number of features
python3.10-kmapper> (columns). The default value of 1 rejects empty datasets.
python3.10-kmapper> This check is only enforced when the input data has effectively 2
python3.10-kmapper> dimensions or is originally 1D and ``ensure_2d`` is True. Setting to 0
python3.10-kmapper> disables this check.
python3.10-kmapper>
python3.10-kmapper> estimator : str or estimator instance, default=None
python3.10-kmapper> If passed, include the name of the estimator in warning messages.
python3.10-kmapper>
python3.10-kmapper> input_name : str, default=""
python3.10-kmapper> The data name used to construct the error message. In particular
python3.10-kmapper> if `input_name` is "X" and the data has NaN values and
python3.10-kmapper> allow_nan is False, the error message will link to the imputer
python3.10-kmapper> documentation.
python3.10-kmapper>
python3.10-kmapper> .. versionadded:: 1.1.0
python3.10-kmapper>
python3.10-kmapper> Returns
python3.10-kmapper> -------
python3.10-kmapper> array_converted : object
python3.10-kmapper> The converted and validated array.
python3.10-kmapper> """
python3.10-kmapper> if isinstance(array, np.matrix):
python3.10-kmapper> > raise TypeError(
python3.10-kmapper> "np.matrix is not supported. Please convert to a numpy array with "
python3.10-kmapper> "np.asarray. For more information see: "
python3.10-kmapper> "https://numpy.org/doc/stable/reference/generated/numpy.matrix.html"
python3.10-kmapper> )
python3.10-kmapper> E TypeError: np.matrix is not supported. Please convert to a numpy array with np.asarray. For more information see: https://numpy.org/doc/stable/reference/generated/numpy.matrix.html
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/utils/validation.py:737: TypeError
python3.10-kmapper> ___________________________ TestLens.test_map_sparse ___________________________
python3.10-kmapper> self = <test.test_mapper.TestLens object at 0x7ffde841d960>
python3.10-kmapper> def test_map_sparse(self):
python3.10-kmapper> mapper = KeplerMapper()
python3.10-kmapper> data = sparse.random(100, 10, random_state=100101)
python3.10-kmapper> > lens = mapper.fit_transform(data)
python3.10-kmapper> test/test_mapper.py:432:
python3.10-kmapper> _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
python3.10-kmapper> kmapper/kmapper.py:361: in fit_transform
python3.10-kmapper> lens = self.project(
python3.10-kmapper> kmapper/kmapper.py:284: in project
python3.10-kmapper> X = scaler.fit_transform(X)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/utils/_set_output.py:142: in wrapped
python3.10-kmapper> data_to_wrap = f(self, X, *args, **kwargs)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/base.py:859: in fit_transform
python3.10-kmapper> return self.fit(X, **fit_params).transform(X)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/preprocessing/_data.py:427: in fit
python3.10-kmapper> return self.partial_fit(X, y)
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/preprocessing/_data.py:466: in partial_fit
python3.10-kmapper> X = self._validate_data(
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/base.py:546: in _validate_data
python3.10-kmapper> X = check_array(X, input_name="X", **check_params)
python3.10-kmapper> _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
python3.10-kmapper> array = matrix([[0.9563001 ],
python3.10-kmapper> [0.54787935],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0. ],
python3.10-kmapper> ... ],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0.88231185],
python3.10-kmapper> [0. ],
python3.10-kmapper> [0.63616756],
python3.10-kmapper> [0.2823345 ]])
python3.10-kmapper> accept_sparse = False
python3.10-kmapper> def check_array(
python3.10-kmapper> array,
python3.10-kmapper> accept_sparse=False,
python3.10-kmapper> *,
python3.10-kmapper> accept_large_sparse=True,
python3.10-kmapper> dtype="numeric",
python3.10-kmapper> order=None,
python3.10-kmapper> copy=False,
python3.10-kmapper> force_all_finite=True,
python3.10-kmapper> ensure_2d=True,
python3.10-kmapper> allow_nd=False,
python3.10-kmapper> ensure_min_samples=1,
python3.10-kmapper> ensure_min_features=1,
python3.10-kmapper> estimator=None,
python3.10-kmapper> input_name="",
python3.10-kmapper> ):
python3.10-kmapper> """Input validation on an array, list, sparse matrix or similar.
python3.10-kmapper>
python3.10-kmapper> By default, the input is checked to be a non-empty 2D array containing
python3.10-kmapper> only finite values. If the dtype of the array is object, attempt
python3.10-kmapper> converting to float, raising on failure.
python3.10-kmapper>
python3.10-kmapper> Parameters
python3.10-kmapper> ----------
python3.10-kmapper> array : object
python3.10-kmapper> Input object to check / convert.
python3.10-kmapper>
python3.10-kmapper> accept_sparse : str, bool or list/tuple of str, default=False
python3.10-kmapper> String[s] representing allowed sparse matrix formats, such as 'csc',
python3.10-kmapper> 'csr', etc. If the input is sparse but not in the allowed format,
python3.10-kmapper> it will be converted to the first listed format. True allows the input
python3.10-kmapper> to be any format. False means that a sparse matrix input will
python3.10-kmapper> raise an error.
python3.10-kmapper>
python3.10-kmapper> accept_large_sparse : bool, default=True
python3.10-kmapper> If a CSR, CSC, COO or BSR sparse matrix is supplied and accepted by
python3.10-kmapper> accept_sparse, accept_large_sparse=False will cause it to be accepted
python3.10-kmapper> only if its indices are stored with a 32-bit dtype.
python3.10-kmapper>
python3.10-kmapper> .. versionadded:: 0.20
python3.10-kmapper>
python3.10-kmapper> dtype : 'numeric', type, list of type or None, default='numeric'
python3.10-kmapper> Data type of result. If None, the dtype of the input is preserved.
python3.10-kmapper> If "numeric", dtype is preserved unless array.dtype is object.
python3.10-kmapper> If dtype is a list of types, conversion on the first type is only
python3.10-kmapper> performed if the dtype of the input is not in the list.
python3.10-kmapper>
python3.10-kmapper> order : {'F', 'C'} or None, default=None
python3.10-kmapper> Whether an array will be forced to be fortran or c-style.
python3.10-kmapper> When order is None (default), then if copy=False, nothing is ensured
python3.10-kmapper> about the memory layout of the output array; otherwise (copy=True)
python3.10-kmapper> the memory layout of the returned array is kept as close as possible
python3.10-kmapper> to the original array.
python3.10-kmapper>
python3.10-kmapper> copy : bool, default=False
python3.10-kmapper> Whether a forced copy will be triggered. If copy=False, a copy might
python3.10-kmapper> be triggered by a conversion.
python3.10-kmapper>
python3.10-kmapper> force_all_finite : bool or 'allow-nan', default=True
python3.10-kmapper> Whether to raise an error on np.inf, np.nan, pd.NA in array. The
python3.10-kmapper> possibilities are:
python3.10-kmapper>
python3.10-kmapper> - True: Force all values of array to be finite.
python3.10-kmapper> - False: accepts np.inf, np.nan, pd.NA in array.
python3.10-kmapper> - 'allow-nan': accepts only np.nan and pd.NA values in array. Values
python3.10-kmapper> cannot be infinite.
python3.10-kmapper>
python3.10-kmapper> .. versionadded:: 0.20
python3.10-kmapper> ``force_all_finite`` accepts the string ``'allow-nan'``.
python3.10-kmapper>
python3.10-kmapper> .. versionchanged:: 0.23
python3.10-kmapper> Accepts `pd.NA` and converts it into `np.nan`
python3.10-kmapper>
python3.10-kmapper> ensure_2d : bool, default=True
python3.10-kmapper> Whether to raise a value error if array is not 2D.
python3.10-kmapper>
python3.10-kmapper> allow_nd : bool, default=False
python3.10-kmapper> Whether to allow array.ndim > 2.
python3.10-kmapper>
python3.10-kmapper> ensure_min_samples : int, default=1
python3.10-kmapper> Make sure that the array has a minimum number of samples in its first
python3.10-kmapper> axis (rows for a 2D array). Setting to 0 disables this check.
python3.10-kmapper>
python3.10-kmapper> ensure_min_features : int, default=1
python3.10-kmapper> Make sure that the 2D array has some minimum number of features
python3.10-kmapper> (columns). The default value of 1 rejects empty datasets.
python3.10-kmapper> This check is only enforced when the input data has effectively 2
python3.10-kmapper> dimensions or is originally 1D and ``ensure_2d`` is True. Setting to 0
python3.10-kmapper> disables this check.
python3.10-kmapper>
python3.10-kmapper> estimator : str or estimator instance, default=None
python3.10-kmapper> If passed, include the name of the estimator in warning messages.
python3.10-kmapper>
python3.10-kmapper> input_name : str, default=""
python3.10-kmapper> The data name used to construct the error message. In particular
python3.10-kmapper> if `input_name` is "X" and the data has NaN values and
python3.10-kmapper> allow_nan is False, the error message will link to the imputer
python3.10-kmapper> documentation.
python3.10-kmapper>
python3.10-kmapper> .. versionadded:: 1.1.0
python3.10-kmapper>
python3.10-kmapper> Returns
python3.10-kmapper> -------
python3.10-kmapper> array_converted : object
python3.10-kmapper> The converted and validated array.
python3.10-kmapper> """
python3.10-kmapper> if isinstance(array, np.matrix):
python3.10-kmapper> > raise TypeError(
python3.10-kmapper> "np.matrix is not supported. Please convert to a numpy array with "
python3.10-kmapper> "np.asarray. For more information see: "
python3.10-kmapper> "https://numpy.org/doc/stable/reference/generated/numpy.matrix.html"
python3.10-kmapper> )
python3.10-kmapper> E TypeError: np.matrix is not supported. Please convert to a numpy array with np.asarray. For more information see: https://numpy.org/doc/stable/reference/generated/numpy.matrix.html
python3.10-kmapper> /nix/store/avaqkdjpx2w50dgyq9769fa3ghvr8cvx-python3.10-scikit-learn-1.2.1/lib/python3.10/site-packages/sklearn/utils/validation.py:737: TypeError
python3.10-kmapper> =============================== warnings summary ===============================
python3.10-kmapper> ../../../nix/store/sbvvsq13chaw7hpqll69wv69jz11rbzg-python3.10-jupyter_client-7.4.8/lib/python3.10/site-packages/jupyter_client/connect.py:27
python3.10-kmapper> /nix/store/sbvvsq13chaw7hpqll69wv69jz11rbzg-python3.10-jupyter_client-7.4.8/lib/python3.10/site-packages/jupyter_client/connect.py:27: DeprecationWarning: Jupyter is migrating its paths to use standard platformdirs
python3.10-kmapper> given by the platformdirs library. To remove this warning and
python3.10-kmapper> see the appropriate new directories, set the environment variable
python3.10-kmapper> `JUPYTER_PLATFORM_DIRS=1` and then run `jupyter --paths`.
python3.10-kmapper> The use of platformdirs will be the default in `jupyter_core` v6
python3.10-kmapper> from jupyter_core.paths import jupyter_data_dir
python3.10-kmapper> test/test_coverer.py::TestCoverBasic::test_find_1d[Cover]
python3.10-kmapper> test/test_coverer.py::TestCoverBasic::test_find_2d[Cover]
python3.10-kmapper> test/test_coverer.py::TestCoverBounds::test_bounds
python3.10-kmapper> /tmp/nix-build-python3.10-kmapper-2.0.1.drv-0/source/kmapper/cover.py:111: DeprecationWarning: `np.float` is a deprecated alias for the builtin `float`. To silence this warning, use `float` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.float64` here.
python3.10-kmapper> Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
python3.10-kmapper> limits_array[self.limits != np.float("inf")] = 0
python3.10-kmapper> test/test_coverer.py::TestCoverBasic::test_find_1d[Cover]
python3.10-kmapper> test/test_coverer.py::TestCoverBasic::test_find_2d[Cover]
python3.10-kmapper> test/test_coverer.py::TestCoverBounds::test_bounds
python3.10-kmapper> /tmp/nix-build-python3.10-kmapper-2.0.1.drv-0/source/kmapper/cover.py:112: DeprecationWarning: `np.float` is a deprecated alias for the builtin `float`. To silence this warning, use `float` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.float64` here.
python3.10-kmapper> Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
python3.10-kmapper> self.limits[self.limits == np.float("inf")] = 0
python3.10-kmapper> test/test_coverer.py::TestCoverBounds::test_bounds
python3.10-kmapper> test/test_coverer.py::TestCoverBounds::test_bounds
python3.10-kmapper> /tmp/nix-build-python3.10-kmapper-2.0.1.drv-0/source/test/test_coverer.py:222: DeprecationWarning: `np.float` is a deprecated alias for the builtin `float`. To silence this warning, use `float` by itself. Doing this will not modify any behavior and is safe. If you specifically wanted the numpy scalar type, use `np.float64` here.
python3.10-kmapper> Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
python3.10-kmapper> limits = np.array([[np.float("inf"), np.float("inf")], [-10, 100]])
python3.10-kmapper> test/test_mapper.py::TestMap::test_remove_duplicates_argument
python3.10-kmapper> /tmp/nix-build-python3.10-kmapper-2.0.1.drv-0/source/kmapper/cover.py:191: RuntimeWarning: divide by zero encountered in divide
python3.10-kmapper> radius = ranges / (2 * (n_cubes) * (1 - perc_overlap))
python3.10-kmapper> test/test_plotly.py::test_plotly_graph
python3.10-kmapper> /tmp/nix-build-python3.10-kmapper-2.0.1.drv-0/source/kmapper/plotlyviz.py:393: DeprecationWarning: `np.int` is a deprecated alias for the builtin `int`. To silence this warning, use `int` by itself. Doing this will not modify any behavior and is safe. When replacing `np.int`, you may wish to use e.g. `np.int64` or `np.int32` to specify the precision. If you wish to review your current use, check the release note link for additional information.
python3.10-kmapper> Deprecated in NumPy 1.20; for more details and guidance: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations
python3.10-kmapper> [factor_size * node["size"] for node in kmgraph["nodes"]], dtype=np.int
python3.10-kmapper> test/test_visuals.py::TestVisualHelpers::test_visualize_graph_with_cluster_stats_above_below
python3.10-kmapper> test/test_visuals.py::TestVisualHelpers::test_visualize_graph_with_cluster_stats_above_below
python3.10-kmapper> test/test_visuals.py::TestVisualHelpers::test_cluster_stats_above
python3.10-kmapper> test/test_visuals.py::TestVisualHelpers::test_cluster_stats_below
python3.10-kmapper> test/test_visuals.py::TestVisualHelpers::test_cluster_stats_with_no_names
python3.10-kmapper> /tmp/nix-build-python3.10-kmapper-2.0.1.drv-0/source/kmapper/visuals.py:413: RuntimeWarning:
python3.10-kmapper> invalid value encountered in divide
python3.10-kmapper> -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
python3.10-kmapper> =========================== short test summary info ============================
python3.10-kmapper> FAILED test/test_coverer.py::TestCover::test_radius_dist - sklearn.utils._param_validation.InvalidParameterError: The 'feature_range' ...
python3.10-kmapper> FAILED test/test_mapper.py::TestLens::test_sparse_array - TypeError: np.matrix is not supported. Please convert to a numpy array with...
python3.10-kmapper> FAILED test/test_mapper.py::TestLens::test_map_sparse - TypeError: np.matrix is not supported. Please convert to a numpy array with...
python3.10-kmapper> ================== 3 failed, 98 passed, 16 warnings in 13.71s ==================
python3.10-kmapper> /nix/store/b09v23lirgvci3wzszh22mbkdfj0h0yq-stdenv-linux/setup: line 1582: pop_var_context: head of shell_variables not a function context
error: builder for '/nix/store/g56gsx5di6zbpllr1p883k81g4sv70yl-python3.10-kmapper-2.0.1.drv' failed with exit code 1
error: 1 dependencies of derivation '/nix/store/gpm5vzvi8f5rnlwawr785a58l59phzyl-python3.10-scikit-tda-1.0.0.drv' failed to build |
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ofborg
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added
8.has: clean-up
8.has: package (new)
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Result of 7 packages marked as broken and skipped:
11 packages failed to build:
80 packages built:
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ConnorBaker
changed the title
ConnorBaker
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Result of 7 packages marked as broken and skipped:
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73 packages built:
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ConnorBaker
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Result of 7 packages marked as broken and skipped:
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80 packages built:
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ConnorBaker
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Result of 7 packages marked as broken and skipped:
30 packages failed to build:
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Hey @ConnorBaker , just want to say you're doing God's work with this PR! It's no small task getting all this done. I'm excited to get some of this merged! |
ConnorBaker
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Phew! This PR is back to just being about the CUDA 12.0.1 version bump. The others and things I learned while doing this are now in separate PRs. Gotta rerun |
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Result of |
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10.rebuild-darwin: 0
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Changes LGTM now! there's currently a merge conflict but we can merge once that's resolved. (feel free to ping me once it's ready) we'll still need to update the cudaPackages alias to point to this, but that belongs in its own PR |
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@samuela rebased, force-pushed, and ready to go! |
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Awesome, thank @ConnorBaker ! |
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Did this include the fix from? #215552 |
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This pull request has been mentioned on NixOS Discourse. There might be relevant details there: https://discourse.nixos.org/t/tweag-nix-dev-update-45/26397/1 |
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Description of changes
Things done
sandbox = trueset innix.conf? (See Nix manual)nix-shell -p nixpkgs-review --run "nixpkgs-review rev HEAD". Note: all changes have to be committed, also see nixpkgs-review usage./result/bin/)nixos/doc/manual/md-to-db.shto update generated release notescc @NixOS/cuda-maintainers