pymc-devs / pymc-devs/pytensor
BLAS warnings in new github windows CI
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Description
Description
We're seeing BLAS warnings in the windows CI for pymc-extras. There are two. One is the usual linker failure:
CI log snippet
2025-09-28T18:44:42.2527549Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1757 Rewrite failure due to: e(Sub, ~z, e(Mul, ~alpha [<function <lambda> at 0x000001779D4AA980>], e(SparseDot, ~x, ~y))) -> e(Usmm{no_inplace}, e(Neg, ~alpha [<function <lambda> at 0x000001779D4AA980>]), ~x, ~y, ~z)
2025-09-28T18:44:42.2528530Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1758 node: Sub(Add.0, Mul.0)
2025-09-28T18:44:42.2529036Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1759 TRACEBACK:
2025-09-28T18:44:42.2529579Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1760 Traceback (most recent call last):
2025-09-28T18:44:42.2530256Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 300, in fetch_val_for_key
2025-09-28T18:44:42.2530800Z return self._pytensor_cfg.get(section, option)
2025-09-28T18:44:42.2531049Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2531431Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\configparser.py", line 759, in get
2025-09-28T18:44:42.2531824Z d = self._unify_values(section, vars)
2025-09-28T18:44:42.2532039Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2532446Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\configparser.py", line 1132, in _unify_values
2025-09-28T18:44:42.2532876Z raise NoSectionError(section) from None
2025-09-28T18:44:42.2533138Z configparser.NoSectionError: No section: 'blas'
2025-09-28T18:44:42.2533323Z
2025-09-28T18:44:42.2533475Z During handling of the above exception, another exception occurred:
2025-09-28T18:44:42.2533706Z
2025-09-28T18:44:42.2533784Z Traceback (most recent call last):
2025-09-28T18:44:42.2534249Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 415, in __get__
2025-09-28T18:44:42.2534794Z val_str = cls.fetch_val_for_key(self.name, delete_key=delete_key)
2025-09-28T18:44:42.2535078Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2535581Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 304, in fetch_val_for_key
2025-09-28T18:44:42.2536074Z raise KeyError(key)
2025-09-28T18:44:42.2536251Z KeyError: 'blas__ldflags'
2025-09-28T18:44:42.2536466Z
2025-09-28T18:44:42.2536618Z During handling of the above exception, another exception occurred:
2025-09-28T18:44:42.2536846Z
2025-09-28T18:44:42.2536920Z Traceback (most recent call last):
2025-09-28T18:44:42.2537433Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\basic.py", line 1922, in process_node
2025-09-28T18:44:42.2538000Z replacements = node_rewriter.transform(fgraph, node)
2025-09-28T18:44:42.2538264Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2538763Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\basic.py", line 1633, in transform
2025-09-28T18:44:42.2539276Z s = unify(self.in_pattern, node.out)
2025-09-28T18:44:42.2539486Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2539959Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\multipledispatch\dispatcher.py", line 278, in __call__
2025-09-28T18:44:42.2540458Z return func(*args, **kwargs)
2025-09-28T18:44:42.2540648Z ^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2541492Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 254, in unify_NoMap
2025-09-28T18:44:42.2541971Z return unify(u, v, {})
2025-09-28T18:44:42.2542249Z ^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2542712Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\multipledispatch\dispatcher.py", line 278, in __call__
2025-09-28T18:44:42.2543203Z return func(*args, **kwargs)
2025-09-28T18:44:42.2543392Z ^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2543815Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 249, in unify
2025-09-28T18:44:42.2544270Z return stream_eval(_unify(u, v, s))
2025-09-28T18:44:42.2544475Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2544919Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 45, in stream_eval
2025-09-28T18:44:42.2545379Z z_out = z.send(z_args)
2025-09-28T18:44:42.2545547Z ^^^^^^^^^^^^^^
2025-09-28T18:44:42.2546064Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\unify.py", line 245, in _unify_ConstrainedVar_object
2025-09-28T18:44:42.2546649Z and not v_w.constraint(eval_if_etuple(u_w))
2025-09-28T18:44:42.2546880Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2547349Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\sparse\rewriting.py", line 918, in <lambda>
2025-09-28T18:44:42.2547889Z all(s == 1 for s in expr.type.shape) and config.blas__ldflags
2025-09-28T18:44:42.2548161Z ^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2548628Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 419, in __get__
2025-09-28T18:44:42.2549104Z val_str = self.default()
2025-09-28T18:44:42.2549285Z ^^^^^^^^^^^^^^
2025-09-28T18:44:42.2549766Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\link\c\cmodule.py", line 2968, in default_blas_ldflags
2025-09-28T18:44:42.2550275Z warnings.warn(
2025-09-28T18:44:42.2550701Z UserWarning: PyTensor could not link to a BLAS installation. Operations that might benefit from BLAS will be severely degraded.
2025-09-28T18:44:42.2551386Z This usually happens when PyTensor is installed via pip. We recommend it be installed via conda/mamba/pixi instead.
2025-09-28T18:44:42.2552327Z Alternatively, you can use an experimental backend such as Numba or JAX that perform their own BLAS optimizations, by setting `pytensor.config.mode == 'NUMBA'` or passing `mode='NUMBA'` when compiling a PyTensor function.
2025-09-28T18:44:42.2553361Z For more options and details see https://pytensor.readthedocs.io/en/latest/troubleshooting.html#how-do-i-configure-test-my-blas-library
2025-09-28T18:44:42.2553906Z
2025-09-28T18:44:42.2554733Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1757 Rewrite failure due to: e(Sub, ~z, e(Mul, ~alpha [<function <lambda> at 0x000001779D4AA980>], e(SparseDot, ~x, ~y))) -> e(Usmm{no_inplace}, e(Neg, ~alpha [<function <lambda> at 0x000001779D4AA980>]), ~x, ~y, ~z)
2025-09-28T18:44:42.2555713Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1758 node: Sub(Add.0, Mul.0)
2025-09-28T18:44:42.2556212Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1759 TRACEBACK:
2025-09-28T18:44:42.2556750Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1760 Traceback (most recent call last):
2025-09-28T18:44:42.2557423Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 300, in fetch_val_for_key
2025-09-28T18:44:42.2557959Z return self._pytensor_cfg.get(section, option)
2025-09-28T18:44:42.2558207Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2558911Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\configparser.py", line 759, in get
2025-09-28T18:44:42.2559358Z d = self._unify_values(section, vars)
2025-09-28T18:44:42.2559686Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2560106Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\configparser.py", line 1132, in _unify_values
2025-09-28T18:44:42.2560577Z raise NoSectionError(section) from None
2025-09-28T18:44:42.2560835Z configparser.NoSectionError: No section: 'blas'
2025-09-28T18:44:42.2561020Z
2025-09-28T18:44:42.2561173Z During handling of the above exception, another exception occurred:
2025-09-28T18:44:42.2561403Z
2025-09-28T18:44:42.2561486Z Traceback (most recent call last):
2025-09-28T18:44:42.2561947Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 415, in __get__
2025-09-28T18:44:42.2562496Z val_str = cls.fetch_val_for_key(self.name, delete_key=delete_key)
2025-09-28T18:44:42.2562781Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2563291Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 304, in fetch_val_for_key
2025-09-28T18:44:42.2563785Z raise KeyError(key)
2025-09-28T18:44:42.2563966Z KeyError: 'blas__ldflags'
2025-09-28T18:44:42.2564081Z
2025-09-28T18:44:42.2564236Z During handling of the above exception, another exception occurred:
2025-09-28T18:44:42.2564464Z
2025-09-28T18:44:42.2564545Z Traceback (most recent call last):
2025-09-28T18:44:42.2565049Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\basic.py", line 1922, in process_node
2025-09-28T18:44:42.2565617Z replacements = node_rewriter.transform(fgraph, node)
2025-09-28T18:44:42.2565888Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2566388Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\basic.py", line 1633, in transform
2025-09-28T18:44:42.2566908Z s = unify(self.in_pattern, node.out)
2025-09-28T18:44:42.2567125Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2567608Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\multipledispatch\dispatcher.py", line 278, in __call__
2025-09-28T18:44:42.2568100Z return func(*args, **kwargs)
2025-09-28T18:44:42.2568292Z ^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2568729Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 254, in unify_NoMap
2025-09-28T18:44:42.2569183Z return unify(u, v, {})
2025-09-28T18:44:42.2569354Z ^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2569801Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\multipledispatch\dispatcher.py", line 278, in __call__
2025-09-28T18:44:42.2570379Z return func(*args, **kwargs)
2025-09-28T18:44:42.2570557Z ^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2570971Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 249, in unify
2025-09-28T18:44:42.2571423Z return stream_eval(_unify(u, v, s))
2025-09-28T18:44:42.2571625Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2572064Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 45, in stream_eval
2025-09-28T18:44:42.2572515Z z_out = z.send(z_args)
2025-09-28T18:44:42.2572678Z ^^^^^^^^^^^^^^
2025-09-28T18:44:42.2573192Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\unify.py", line 245, in _unify_ConstrainedVar_object
2025-09-28T18:44:42.2573770Z and not v_w.constraint(eval_if_etuple(u_w))
2025-09-28T18:44:42.2574006Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2574476Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\sparse\rewriting.py", line 918, in <lambda>
2025-09-28T18:44:42.2575012Z all(s == 1 for s in expr.type.shape) and config.blas__ldflags
2025-09-28T18:44:42.2575355Z ^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2575835Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 419, in __get__
2025-09-28T18:44:42.2576300Z val_str = self.default()
2025-09-28T18:44:42.2576479Z ^^^^^^^^^^^^^^
2025-09-28T18:44:42.2576958Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\link\c\cmodule.py", line 2968, in default_blas_ldflags
2025-09-28T18:44:42.2577460Z warnings.warn(
2025-09-28T18:44:42.2577879Z UserWarning: PyTensor could not link to a BLAS installation. Operations that might benefit from BLAS will be severely degraded.
2025-09-28T18:44:42.2578567Z This usually happens when PyTensor is installed via pip. We recommend it be installed via conda/mamba/pixi instead.
2025-09-28T18:44:42.2579806Z Alternatively, you can use an experimental backend such as Numba or JAX that perform their own BLAS optimizations, by setting `pytensor.config.mode == 'NUMBA'` or passing `mode='NUMBA'` when compiling a PyTensor function.
2025-09-28T18:44:42.2580844Z For more options and details see https://pytensor.readthedocs.io/en/latest/troubleshooting.html#how-do-i-configure-test-my-blas-library
2025-09-28T18:44:42.2581316Z
2025-09-28T18:44:42.2582129Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1757 Rewrite failure due to: e(Sub, ~z, e(Mul, ~alpha [<function <lambda> at 0x000001779D4AA980>], e(SparseDot, ~x, ~y))) -> e(Usmm{no_inplace}, e(Neg, ~alpha [<function <lambda> at 0x000001779D4AA980>]), ~x, ~y, ~z)
2025-09-28T18:44:42.2583103Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1758 node: Sub(Add.0, Mul.0)
2025-09-28T18:44:42.2583601Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1759 TRACEBACK:
2025-09-28T18:44:42.2584135Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1760 Traceback (most recent call last):
2025-09-28T18:44:42.2584803Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 300, in fetch_val_for_key
2025-09-28T18:44:42.2585345Z return self._pytensor_cfg.get(section, option)
2025-09-28T18:44:42.2585593Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2585961Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\configparser.py", line 759, in get
2025-09-28T18:44:42.2586361Z d = self._unify_values(section, vars)
2025-09-28T18:44:42.2586579Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2586982Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\configparser.py", line 1132, in _unify_values
2025-09-28T18:44:42.2587527Z raise NoSectionError(section) from None
2025-09-28T18:44:42.2587789Z configparser.NoSectionError: No section: 'blas'
2025-09-28T18:44:42.2587970Z
2025-09-28T18:44:42.2588128Z During handling of the above exception, another exception occurred:
2025-09-28T18:44:42.2588358Z
2025-09-28T18:44:42.2588447Z Traceback (most recent call last):
2025-09-28T18:44:42.2588905Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 415, in __get__
2025-09-28T18:44:42.2589441Z val_str = cls.fetch_val_for_key(self.name, delete_key=delete_key)
2025-09-28T18:44:42.2589726Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2590223Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 304, in fetch_val_for_key
2025-09-28T18:44:42.2590723Z raise KeyError(key)
2025-09-28T18:44:42.2590908Z KeyError: 'blas__ldflags'
2025-09-28T18:44:42.2591025Z
2025-09-28T18:44:42.2591179Z During handling of the above exception, another exception occurred:
2025-09-28T18:44:42.2591406Z
2025-09-28T18:44:42.2591477Z Traceback (most recent call last):
2025-09-28T18:44:42.2592057Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\basic.py", line 1922, in process_node
2025-09-28T18:44:42.2592622Z replacements = node_rewriter.transform(fgraph, node)
2025-09-28T18:44:42.2592879Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2593383Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\basic.py", line 1633, in transform
2025-09-28T18:44:42.2593893Z s = unify(self.in_pattern, node.out)
2025-09-28T18:44:42.2594103Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2594578Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\multipledispatch\dispatcher.py", line 278, in __call__
2025-09-28T18:44:42.2595072Z return func(*args, **kwargs)
2025-09-28T18:44:42.2595262Z ^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2595693Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 254, in unify_NoMap
2025-09-28T18:44:42.2596160Z return unify(u, v, {})
2025-09-28T18:44:42.2596332Z ^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2596780Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\multipledispatch\dispatcher.py", line 278, in __call__
2025-09-28T18:44:42.2597266Z return func(*args, **kwargs)
2025-09-28T18:44:42.2597449Z ^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2597861Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 249, in unify
2025-09-28T18:44:42.2598306Z return stream_eval(_unify(u, v, s))
2025-09-28T18:44:42.2598511Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2599291Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 45, in stream_eval
2025-09-28T18:44:42.2599758Z z_out = z.send(z_args)
2025-09-28T18:44:42.2599936Z ^^^^^^^^^^^^^^
2025-09-28T18:44:42.2600456Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\unify.py", line 245, in _unify_ConstrainedVar_object
2025-09-28T18:44:42.2601043Z and not v_w.constraint(eval_if_etuple(u_w))
2025-09-28T18:44:42.2601276Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2601758Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\sparse\rewriting.py", line 918, in <lambda>
2025-09-28T18:44:42.2602292Z all(s == 1 for s in expr.type.shape) and config.blas__ldflags
2025-09-28T18:44:42.2602564Z ^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2603042Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 419, in __get__
2025-09-28T18:44:42.2603617Z val_str = self.default()
2025-09-28T18:44:42.2603799Z ^^^^^^^^^^^^^^
2025-09-28T18:44:42.2604285Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\link\c\cmodule.py", line 2968, in default_blas_ldflags
2025-09-28T18:44:42.2604794Z warnings.warn(
2025-09-28T18:44:42.2605215Z UserWarning: PyTensor could not link to a BLAS installation. Operations that might benefit from BLAS will be severely degraded.
2025-09-28T18:44:42.2605897Z This usually happens when PyTensor is installed via pip. We recommend it be installed via conda/mamba/pixi instead.
2025-09-28T18:44:42.2606835Z Alternatively, you can use an experimental backend such as Numba or JAX that perform their own BLAS optimizations, by setting `pytensor.config.mode == 'NUMBA'` or passing `mode='NUMBA'` when compiling a PyTensor function.
2025-09-28T18:44:42.2607872Z For more options and details see https://pytensor.readthedocs.io/en/latest/troubleshooting.html#how-do-i-configure-test-my-blas-library
2025-09-28T18:44:42.2608337Z
2025-09-28T18:44:42.2609221Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1757 Rewrite failure due to: e(Sub, ~z, e(Mul, ~alpha [<function <lambda> at 0x000001779D4AA980>], e(SparseDot, ~x, ~y))) -> e(Usmm{no_inplace}, e(Neg, ~alpha [<function <lambda> at 0x000001779D4AA980>]), ~x, ~y, ~z)
2025-09-28T18:44:42.2610203Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1758 node: Sub(Add.0, Mul.0)
2025-09-28T18:44:42.2610695Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1759 TRACEBACK:
2025-09-28T18:44:42.2611231Z [1m[31mERROR [0m pytensor.graph.rewriting.basic:basic.py:1760 Traceback (most recent call last):
2025-09-28T18:44:42.2611895Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 300, in fetch_val_for_key
2025-09-28T18:44:42.2612430Z return self._pytensor_cfg.get(section, option)
2025-09-28T18:44:42.2612673Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2613045Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\configparser.py", line 759, in get
2025-09-28T18:44:42.2613434Z d = self._unify_values(section, vars)
2025-09-28T18:44:42.2613655Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2614062Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\configparser.py", line 1132, in _unify_values
2025-09-28T18:44:42.2614494Z raise NoSectionError(section) from None
2025-09-28T18:44:42.2614762Z configparser.NoSectionError: No section: 'blas'
2025-09-28T18:44:42.2614949Z
2025-09-28T18:44:42.2615103Z During handling of the above exception, another exception occurred:
2025-09-28T18:44:42.2615336Z
2025-09-28T18:44:42.2615415Z Traceback (most recent call last):
2025-09-28T18:44:42.2615873Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 415, in __get__
2025-09-28T18:44:42.2616411Z val_str = cls.fetch_val_for_key(self.name, delete_key=delete_key)
2025-09-28T18:44:42.2616698Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2617211Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 304, in fetch_val_for_key
2025-09-28T18:44:42.2617700Z raise KeyError(key)
2025-09-28T18:44:42.2617879Z KeyError: 'blas__ldflags'
2025-09-28T18:44:42.2617993Z
2025-09-28T18:44:42.2618145Z During handling of the above exception, another exception occurred:
2025-09-28T18:44:42.2618438Z
2025-09-28T18:44:42.2618547Z Traceback (most recent call last):
2025-09-28T18:44:42.2619443Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\basic.py", line 1922, in process_node
2025-09-28T18:44:42.2620021Z replacements = node_rewriter.transform(fgraph, node)
2025-09-28T18:44:42.2620415Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2620919Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\basic.py", line 1633, in transform
2025-09-28T18:44:42.2621438Z s = unify(self.in_pattern, node.out)
2025-09-28T18:44:42.2621659Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2622140Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\multipledispatch\dispatcher.py", line 278, in __call__
2025-09-28T18:44:42.2622641Z return func(*args, **kwargs)
2025-09-28T18:44:42.2622835Z ^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2623277Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 254, in unify_NoMap
2025-09-28T18:44:42.2623744Z return unify(u, v, {})
2025-09-28T18:44:42.2623927Z ^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2624382Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\multipledispatch\dispatcher.py", line 278, in __call__
2025-09-28T18:44:42.2624873Z return func(*args, **kwargs)
2025-09-28T18:44:42.2625061Z ^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2625552Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 249, in unify
2025-09-28T18:44:42.2626012Z return stream_eval(_unify(u, v, s))
2025-09-28T18:44:42.2626217Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2626665Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\unification\core.py", line 45, in stream_eval
2025-09-28T18:44:42.2627121Z z_out = z.send(z_args)
2025-09-28T18:44:42.2627291Z ^^^^^^^^^^^^^^
2025-09-28T18:44:42.2627806Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\graph\rewriting\unify.py", line 245, in _unify_ConstrainedVar_object
2025-09-28T18:44:42.2628392Z and not v_w.constraint(eval_if_etuple(u_w))
2025-09-28T18:44:42.2628625Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2629099Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\sparse\rewriting.py", line 918, in <lambda>
2025-09-28T18:44:42.2629641Z all(s == 1 for s in expr.type.shape) and config.blas__ldflags
2025-09-28T18:44:42.2629912Z ^^^^^^^^^^^^^^^^^^^^
2025-09-28T18:44:42.2630385Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\configparser.py", line 419, in __get__
2025-09-28T18:44:42.2630857Z val_str = self.default()
2025-09-28T18:44:42.2631038Z ^^^^^^^^^^^^^^
2025-09-28T18:44:42.2631523Z File "C:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pytensor\link\c\cmodule.py", line 2968, in default_blas_ldflags
2025-09-28T18:44:42.2632027Z warnings.warn(
2025-09-28T18:44:42.2632453Z UserWarning: PyTensor could not link to a BLAS installation. Operations that might benefit from BLAS will be severely degraded.
2025-09-28T18:44:42.2633139Z This usually happens when PyTensor is installed via pip. We recommend it be installed via conda/mamba/pixi instead.
2025-09-28T18:44:42.2634085Z Alternatively, you can use an experimental backend such as Numba or JAX that perform their own BLAS optimizations, by setting `pytensor.config.mode == 'NUMBA'` or passing `mode='NUMBA'` when compiling a PyTensor function.
2025-09-28T18:44:42.2635116Z For more options and details see https://pytensor.readthedocs.io/en/latest/troubleshooting.html#how-do-i-configure-test-my-blas-library
And one is a bit more exotic (to me) -- too much linking!
CI log snippet
2025-09-28T18:48:33.6073457Z [31m[1m__________________________ test_pipeline_integration __________________________[0m
2025-09-28T18:48:33.6073913Z
2025-09-28T18:48:33.6074280Z toy_X = input
2025-09-28T18:48:33.6074553Z 0 0.000000
2025-09-28T18:48:33.6074787Z 1 0.010101
2025-09-28T18:48:33.6075020Z 2 0.020202
2025-09-28T18:48:33.6075239Z 3 0.030303
2025-09-28T18:48:33.6075473Z 4 0.040404
2025-09-28T18:48:33.6075706Z .. ...
2025-09-28T18:48:33.6075922Z 95 0.959596
2025-09-28T18:48:33.6076152Z 96 0.969697
2025-09-28T18:48:33.6076377Z 97 0.979798
2025-09-28T18:48:33.6076598Z 98 0.989899
2025-09-28T18:48:33.6076828Z 99 1.000000
2025-09-28T18:48:33.6076970Z
2025-09-28T18:48:33.6077076Z [100 rows x 1 columns]
2025-09-28T18:48:33.6077351Z toy_y = 0 3.195543
2025-09-28T18:48:33.6077616Z 1 1.751821
2025-09-28T18:48:33.6078075Z 2 3.394135
2025-09-28T18:48:33.6078311Z 3 3.404821
2025-09-28T18:48:33.6078540Z 4 2.188367
2025-09-28T18:48:33.6078765Z ...
2025-09-28T18:48:33.6078999Z 95 7.545585
2025-09-28T18:48:33.6079234Z 96 8.351528
2025-09-28T18:48:33.6079468Z 97 8.126109
2025-09-28T18:48:33.6079713Z 98 7.567812
2025-09-28T18:48:33.6079938Z 99 8.197637
2025-09-28T18:48:33.6080228Z Name: output, Length: 100, dtype: float64
2025-09-28T18:48:33.6080518Z
2025-09-28T18:48:33.6081836Z [0m[37m@pytest[39;49;00m.mark.skipif([95mnot[39;49;00m sklearn_available, reason=[33m"[39;49;00m[33mscikit-learn package is not available.[39;49;00m[33m"[39;49;00m)[90m[39;49;00m
2025-09-28T18:48:33.6083368Z [94mdef[39;49;00m[90m [39;49;00m[92mtest_pipeline_integration[39;49;00m(toy_X, toy_y):[90m[39;49;00m
2025-09-28T18:48:33.6084130Z model_config = {[90m[39;49;00m
2025-09-28T18:48:33.6085331Z [33m"[39;49;00m[33mintercept[39;49;00m[33m"[39;49;00m: {[33m"[39;49;00m[33mloc[39;49;00m[33m"[39;49;00m: [94m0[39;49;00m, [33m"[39;49;00m[33mscale[39;49;00m[33m"[39;49;00m: [94m2[39;49;00m},[90m[39;49;00m
2025-09-28T18:48:33.6087058Z [33m"[39;49;00m[33mslope[39;49;00m[33m"[39;49;00m: {[33m"[39;49;00m[33mloc[39;49;00m[33m"[39;49;00m: [94m0[39;49;00m, [33m"[39;49;00m[33mscale[39;49;00m[33m"[39;49;00m: [94m2[39;49;00m},[90m[39;49;00m
2025-09-28T18:48:33.6088294Z [33m"[39;49;00m[33mobs_error[39;49;00m[33m"[39;49;00m: [94m1[39;49;00m,[90m[39;49;00m
2025-09-28T18:48:33.6089361Z [33m"[39;49;00m[33mdefault_output_var[39;49;00m[33m"[39;49;00m: [33m"[39;49;00m[33my_hat[39;49;00m[33m"[39;49;00m,[90m[39;49;00m
2025-09-28T18:48:33.6090132Z }[90m[39;49;00m
2025-09-28T18:48:33.6090522Z model = Pipeline([90m[39;49;00m
2025-09-28T18:48:33.6090951Z [[90m[39;49;00m
2025-09-28T18:48:33.6091628Z ([33m"[39;49;00m[33minput_scaling[39;49;00m[33m"[39;49;00m, StandardScaler()),[90m[39;49;00m
2025-09-28T18:48:33.6092290Z ([90m[39;49;00m
2025-09-28T18:48:33.6092894Z [33m"[39;49;00m[33mlinear_model[39;49;00m[33m"[39;49;00m,[90m[39;49;00m
2025-09-28T18:48:33.6093966Z TransformedTargetRegressor(LinearModel(model_config), transformer=StandardScaler()),[90m[39;49;00m
2025-09-28T18:48:33.6094819Z ),[90m[39;49;00m
2025-09-28T18:48:33.6095211Z ][90m[39;49;00m
2025-09-28T18:48:33.6095566Z )[90m[39;49;00m
2025-09-28T18:48:33.6104549Z > model.fit(toy_X, toy_y)[90m[39;49;00m
2025-09-28T18:48:33.6104911Z
2025-09-28T18:48:33.6105207Z [1m[31mtests\test_linearmodel.py[0m:205:
2025-09-28T18:48:33.6105723Z _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
2025-09-28T18:48:33.6106748Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\sklearn\base.py[0m:1365: in wrapper
2025-09-28T18:48:33.6107847Z [0m[94mreturn[39;49;00m fit_method(estimator, *args, **kwargs)[90m[39;49;00m
2025-09-28T18:48:33.6108521Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^[90m[39;49;00m
2025-09-28T18:48:33.6109462Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\sklearn\pipeline.py[0m:663: in fit
2025-09-28T18:48:33.6111099Z [0m[96mself[39;49;00m._final_estimator.fit(Xt, y, **last_step_params[[33m"[39;49;00m[33mfit[39;49;00m[33m"[39;49;00m])[90m[39;49;00m
2025-09-28T18:48:33.6112486Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\sklearn\base.py[0m:1365: in wrapper
2025-09-28T18:48:33.6113579Z [0m[94mreturn[39;49;00m fit_method(estimator, *args, **kwargs)[90m[39;49;00m
2025-09-28T18:48:33.6114254Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^[90m[39;49;00m
2025-09-28T18:48:33.6115263Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\sklearn\compose\_target.py[0m:293: in fit
2025-09-28T18:48:33.6116511Z [0m[96mself[39;49;00m.regressor_.fit(X, y_trans, **routed_params.regressor.fit)[90m[39;49;00m
2025-09-28T18:48:33.6117345Z [1m[31mpymc_extras\model_builder.py[0m:514: in fit
2025-09-28T18:48:33.6118422Z [0m[96mself[39;49;00m.idata = [96mself[39;49;00m.sample_model(**sampler_config)[90m[39;49;00m
2025-09-28T18:48:33.6119196Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^[90m[39;49;00m
2025-09-28T18:48:33.6119979Z [1m[31mpymc_extras\model_builder.py[0m:307: in sample_model
2025-09-28T18:48:33.6120663Z [0midata = pm.sample(**sampler_args)[90m[39;49;00m
2025-09-28T18:48:33.6121231Z ^^^^^^^^^^^^^^^^^^^^^^^^^[90m[39;49;00m
2025-09-28T18:48:33.6122231Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pymc\sampling\mcmc.py[0m:824: in sample
2025-09-28T18:48:33.6123277Z [0m[94mwith[39;49;00m joined_blas_limiter():[90m[39;49;00m
2025-09-28T18:48:33.6123826Z ^^^^^^^^^^^^^^^^^^^^^[90m[39;49;00m
2025-09-28T18:48:33.6124882Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\pymc\sampling\mcmc.py[0m:744: in joined_blas_limiter
2025-09-28T18:48:33.6126080Z [0m[94mreturn[39;49;00m threadpool_limits(limits=blas_cores)[90m[39;49;00m
2025-09-28T18:48:33.6126752Z ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^[90m[39;49;00m
2025-09-28T18:48:33.6127723Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\threadpoolctl.py[0m:794: in __init__
2025-09-28T18:48:33.6129065Z [0m[96msuper[39;49;00m().[92m__init__[39;49;00m(ThreadpoolController(), limits=limits, user_api=user_api)[90m[39;49;00m
2025-09-28T18:48:33.6129924Z ^^^^^^^^^^^^^^^^^^^^^^[90m[39;49;00m
2025-09-28T18:48:33.6130866Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\threadpoolctl.py[0m:819: in __init__
2025-09-28T18:48:33.6131910Z [0m[96mself[39;49;00m._warn_if_incompatible_openmp()[90m[39;49;00m
2025-09-28T18:48:33.6132477Z _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
2025-09-28T18:48:33.6132810Z
2025-09-28T18:48:33.6133136Z self = <threadpoolctl.ThreadpoolController object at 0x000002656CA2A2A0>
2025-09-28T18:48:33.6133687Z
2025-09-28T18:48:33.6195836Z [0m[94mdef[39;49;00m[90m [39;49;00m[92m_warn_if_incompatible_openmp[39;49;00m([96mself[39;49;00m):[90m[39;49;00m
2025-09-28T18:48:33.6197146Z [90m [39;49;00m[33m"""Raise a warning if llvm-OpenMP and intel-OpenMP are both loaded"""[39;49;00m[90m[39;49;00m
2025-09-28T18:48:33.6198534Z prefixes = [lib_controller.prefix [94mfor[39;49;00m lib_controller [95min[39;49;00m [96mself[39;49;00m.lib_controllers][90m[39;49;00m
2025-09-28T18:48:33.6199511Z msg = textwrap.dedent([90m[39;49;00m
2025-09-28T18:48:33.6200008Z [90m [39;49;00m[33m"""[39;49;00m
2025-09-28T18:48:33.6200732Z [33m Found Intel OpenMP ('libiomp') and LLVM OpenMP ('libomp') loaded at[39;49;00m
2025-09-28T18:48:33.6201670Z [33m the same time. Both libraries are known to be incompatible and this[39;49;00m
2025-09-28T18:48:33.6202608Z [33m can cause random crashes or deadlocks on Linux when loaded in the[39;49;00m
2025-09-28T18:48:33.6203583Z [33m same Python program.[39;49;00m
2025-09-28T18:48:33.6204305Z [33m Using threadpoolctl may cause crashes or deadlocks. For more[39;49;00m
2025-09-28T18:48:33.6205153Z [33m information and possible workarounds, please see[39;49;00m
2025-09-28T18:48:33.6206121Z [33m https://github.com/joblib/threadpoolctl/blob/master/multiple_openmp.md[39;49;00m
2025-09-28T18:48:33.6206901Z [33m """[39;49;00m[90m[39;49;00m
2025-09-28T18:48:33.6207322Z )[90m[39;49;00m
2025-09-28T18:48:33.6208500Z [94mif[39;49;00m [33m"[39;49;00m[33mlibomp[39;49;00m[33m"[39;49;00m [95min[39;49;00m prefixes [95mand[39;49;00m [33m"[39;49;00m[33mlibiomp[39;49;00m[33m"[39;49;00m [95min[39;49;00m prefixes:[90m[39;49;00m
2025-09-28T18:48:33.6209771Z > warnings.warn(msg, [96mRuntimeWarning[39;49;00m)[90m[39;49;00m
2025-09-28T18:48:33.6210415Z [1m[31mE RuntimeWarning: [0m
2025-09-28T18:48:33.6211135Z [1m[31mE Found Intel OpenMP ('libiomp') and LLVM OpenMP ('libomp') loaded at[0m
2025-09-28T18:48:33.6212224Z [1m[31mE the same time. Both libraries are known to be incompatible and this[0m
2025-09-28T18:48:33.6213135Z [1m[31mE can cause random crashes or deadlocks on Linux when loaded in the[0m
2025-09-28T18:48:33.6213820Z [1m[31mE same Python program.[0m
2025-09-28T18:48:33.6214518Z [1m[31mE Using threadpoolctl may cause crashes or deadlocks. For more[0m
2025-09-28T18:48:33.6215635Z [1m[31mE information and possible workarounds, please see[0m
2025-09-28T18:48:33.6217438Z [1m[31mE https://github.com/joblib/threadpoolctl/blob/master/multiple_openmp.md[0m
2025-09-28T18:48:33.6218010Z
2025-09-28T18:48:33.6218756Z [1m[31mC:\Users\runneradmin\micromamba\envs\pymc-extras-test\Lib\site-packages\threadpoolctl.py[0m:1226: RuntimeWarning
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start with the linked Windows CI run and the traceback entries in pytensor/configparser.py and pytensor/link/c/cmodule.py; inspect how the workflow installs dependencies and reaches blas__ldflags. Reproduce the warning in the Windows CI job, then confirm the run completes without BLAS warnings or rewrite failures.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- github-actions, python
- Domain
- ci-cd, performance
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100