Rename Aesara→pytensor

Changes
* Aesara → Pytensor
* aesara → pytensor
* AESARA → PYTENSOR
* Applied pre-commit
* GitHub repository URLs
* Contact email addresses
* Headline length in RST files

Author: pymc-devs

.gitattributes

@@ -1 +1 @@
-aesara/_version.py export-subst
+pytensor/_version.py export-subst

.github/ISSUE_TEMPLATE.md

@@ -1,12 +1,12 @@
 ## Description of your problem or feature request
 
-First, carefully read the following to determine whether or not you have a valid Aesara issue:
+First, carefully read the following to determine whether or not you have a valid Pytensor issue:
 
-- Does your issue only arise in a library that uses Aesara (e.g. PyMC)?  If so, submit your issue to that library's issue tracker.  From there, the Aesara-specific details can be worked out and a valid Aesara issue can be identified.  **Issues framed primarily in third-party libraries are liable to being marked as invalid and closed.**
-- Does your issue involve OS and/or environment-specific settings (e.g. installation and/or compilation issues)?  If so, create a [Discussion](https://github.com/aesara-devs/aesara/discussions) instead.  From there, we can help determine whether or not the issue is due to faulty logic in Aesara (i.e. a valid issue) or something specific to your local setup.
+- Does your issue only arise in a library that uses Pytensor (e.g. PyMC)?  If so, submit your issue to that library's issue tracker.  From there, the Pytensor-specific details can be worked out and a valid Pytensor issue can be identified.  **Issues framed primarily in third-party libraries are liable to being marked as invalid and closed.**
+- Does your issue involve OS and/or environment-specific settings (e.g. installation and/or compilation issues)?  If so, create a [Discussion](https://github.com/pymc-devs/pytensor/discussions) instead.  From there, we can help determine whether or not the issue is due to faulty logic in Pytensor (i.e. a valid issue) or something specific to your local setup.
 
 
-If the above does not apply, and you have an issue or feature request that's specific to Aesara, provide a minimal, self-contained, and reproducible example (i.e. an [MWE](https://en.wikipedia.org/wiki/Minimal_reproducible_example)):
+If the above does not apply, and you have an issue or feature request that's specific to Pytensor, provide a minimal, self-contained, and reproducible example (i.e. an [MWE](https://en.wikipedia.org/wiki/Minimal_reproducible_example)):
 
 ```python
 [Your code here]
@@ -24,13 +24,13 @@ If the above does not apply, and you have an issue or feature request that's spe
 
 ## Versions and main components
 
-* Aesara version:
+* Pytensor version:
 * Python version:
 * Operating system:
-* How did you install Aesara: (conda/pip)
+* How did you install Pytensor: (conda/pip)
 
-<details> <summary> Aesara config: </summary>
+<details> <summary> Pytensor config: </summary>
 
-Place the results of `python -c "import aesara; print(aesara.config)"` here.
+Place the results of `python -c "import pytensor; print(pytensor.config)"` here.
 
 </details>

.github/SECURITY.md

@@ -1,3 +1,3 @@
-To report a security vulnerability to Aesara, please go to
+To report a security vulnerability to Pytensor, please go to
 https://tidelift.com/security and see the instructions there.
 

.github/workflows/nightly.yml

@@ -6,7 +6,7 @@ on:
 jobs:
   build_and_publish:
     name: Build source distribution
-    if: github.repository == 'aesara-devs/aesara'
+    if: github.repository == 'pymc-devs/pytensor'
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v2
@@ -22,7 +22,7 @@ jobs:
       - name: Build the sdist
         run: python -m build --sdist .
         env:
-          BUILD_AESARA_NIGHTLY: true
+          BUILD_PYTENSOR_NIGHTLY: true
       - uses: pypa/[email protected]
         with:
           user: __token__

.github/workflows/pypi.yml

@@ -36,8 +36,8 @@ jobs:
           mkdir -p test-sdist
           cd test-sdist
           python -m venv venv-sdist
-          venv-sdist/bin/python -m pip install ../dist/aesara-*.tar.gz
-          venv-sdist/bin/python -c "import aesara;print(aesara.__version__)"
+          venv-sdist/bin/python -m pip install ../dist/pytensor-*.tar.gz
+          venv-sdist/bin/python -c "import pytensor;print(pytensor.__version__)"
       - uses: actions/upload-artifact@v2
         with:
           name: artifact

.github/workflows/test.yml

@@ -31,16 +31,16 @@ jobs:
         with:
           filters: |
             python: &python
-            - 'aesara/**/*.py'
+            - 'pytensor/**/*.py'
             - 'tests/**/*.py'
-            - 'aesara/**/*.pyx'
+            - 'pytensor/**/*.pyx'
             - 'tests/**/*.pyx'
             - '*.py'
             src:
             - *python
-            - 'aesara/**/*.c'
+            - 'pytensor/**/*.c'
             - 'tests/**/*.c'
-            - 'aesara/**/*.h'
+            - 'pytensor/**/*.h'
             - 'tests/**/*.h'
             - '.github/workflows/*.yml'
             - 'setup.cfg'
@@ -120,19 +120,19 @@ jobs:
           mamba install --yes -q -c conda-forge "python~=${PYTHON_VERSION}=*_cpython" jax jaxlib
           pip install -e ./
           mamba list && pip freeze
-          python -c 'import aesara; print(aesara.config.__str__(print_doc=False))'
-          python -c 'import aesara; assert(aesara.config.blas__ldflags != "")'
+          python -c 'import pytensor; print(pytensor.config.__str__(print_doc=False))'
+          python -c 'import pytensor; assert(pytensor.config.blas__ldflags != "")'
         env:
           PYTHON_VERSION: ${{ matrix.python-version }}
           INSTALL_NUMBA: ${{ matrix.install-numba }}
 
       - name: Run tests
         shell: bash -l {0}
         run: |
-          if [[ $FAST_COMPILE == "1" ]]; then export AESARA_FLAGS=$AESARA_FLAGS,mode=FAST_COMPILE; fi
-          if [[ $FLOAT32 == "1" ]]; then export AESARA_FLAGS=$AESARA_FLAGS,floatX=float32; fi
-          export AESARA_FLAGS=$AESARA_FLAGS,warn__ignore_bug_before=all,on_opt_error=raise,on_shape_error=raise,gcc__cxxflags=-pipe
-          python -m pytest -x -r A --verbose --runslow --cov=aesara/ --cov-report=xml:coverage/coverage-${MATRIX_ID}.xml --no-cov-on-fail $PART
+          if [[ $FAST_COMPILE == "1" ]]; then export PYTENSOR_FLAGS=$PYTENSOR_FLAGS,mode=FAST_COMPILE; fi
+          if [[ $FLOAT32 == "1" ]]; then export PYTENSOR_FLAGS=$PYTENSOR_FLAGS,floatX=float32; fi
+          export PYTENSOR_FLAGS=$PYTENSOR_FLAGS,warn__ignore_bug_before=all,on_opt_error=raise,on_shape_error=raise,gcc__cxxflags=-pipe
+          python -m pytest -x -r A --verbose --runslow --cov=pytensor/ --cov-report=xml:coverage/coverage-${MATRIX_ID}.xml --no-cov-on-fail $PART
         env:
           MATRIX_ID: ${{ steps.matrix-id.outputs.id }}
           MKL_THREADING_LAYER: GNU

.gitignore

@@ -35,11 +35,11 @@ doc/indexes/typelist.txt
 html
 pdf
 setuptools-*.egg
-aesara/generated_version.py
-aesara/generated_version.py.out
+pytensor/generated_version.py
+pytensor/generated_version.py.out
 distribute-*.egg
 distribute-*.tar.gz
-Aesara.suo
+Pytensor.suo
 .ipynb_checkpoints
 .pydevproject
 .ropeproject
@@ -49,7 +49,7 @@ core
 .mypy_cache/
 /htmlcov/
 
-aesara-venv/
+pytensor-venv/
 /notebooks/Sandbox*
 .vscode/
 testing-report.html

.pre-commit-config.yaml

@@ -1,7 +1,7 @@
 exclude: |
     (?x)^(
         versioneer\.py|
-        aesara/_version\.py|
+        pytensor/_version\.py|
         doc/.*|
         bin/.*
     )$
@@ -12,11 +12,11 @@ repos:
       - id: debug-statements
         exclude: |
           (?x)^(
-              aesara/breakpoint\.py|
-              aesara/graph/op\.py|
-              aesara/compile/nanguardmode\.py|
-              aesara/graph/rewriting/basic\.py|
-              aesara/tensor/var\.py|
+              pytensor/breakpoint\.py|
+              pytensor/graph/op\.py|
+              pytensor/compile/nanguardmode\.py|
+              pytensor/graph/rewriting/basic\.py|
+              pytensor/tensor/var\.py|
           )$
       - id: check-merge-conflict
   - repo: https://github.com/psf/black
@@ -39,11 +39,11 @@ repos:
         exclude: |
           (?x)^(
               .*/?__init__\.py|
-              aesara/graph/toolbox\.py|
-              aesara/link/jax/jax_dispatch\.py|
-              aesara/link/jax/jax_linker\.py|
-              aesara/scalar/basic_scipy\.py|
-              aesara/tensor/linalg\.py
+              pytensor/graph/toolbox\.py|
+              pytensor/link/jax/jax_dispatch\.py|
+              pytensor/link/jax/jax_linker\.py|
+              pytensor/scalar/basic_scipy\.py|
+              pytensor/tensor/linalg\.py
           )$
         args: ['--in-place', '--remove-all-unused-imports', '--remove-unused-variable']
   - repo: https://github.com/pre-commit/mirrors-mypy

CODE_OF_CONDUCT.md

@@ -1,6 +1,6 @@
-# Aesara Code of Conduct
+# Pytensor Code of Conduct
 
-Like the technical community as a whole, the Aesara team and community is made
+Like the technical community as a whole, the Pytensor team and community is made
 up of a mixture of professionals and volunteers from all over the world, working
 on every aspect of the mission—including mentorship, teaching, and connecting
 people.
@@ -13,14 +13,14 @@ This isn’t an exhaustive list of things that you can’t do. Rather, take it i
 the spirit in which it’s intended—a guide to make it easier to enrich all of
 us and the technical communities in which we participate.
 
-This code of conduct applies to all spaces managed by the Aesara project. This
-includes Gitter, mailing lists, the issue tracker, Aesara events, and any other
+This code of conduct applies to all spaces managed by the Pytensor project. This
+includes Gitter, mailing lists, the issue tracker, Pytensor events, and any other
 forums created by the project team that the community uses for communication.
 In addition, violations of this code outside these spaces may affect a person's
 ability to participate within them.
 
 If you believe someone is violating the code of conduct, we ask that you report
-it by emailing aesara[email protected].
+it by emailing pymc[email protected].
 
 - __Be friendly and patient.__
 
@@ -41,9 +41,9 @@ it by emailing [email protected].
   excuse for poor behavior and poor manners. We might all experience some
   frustration now and then, but we cannot allow that frustration to turn into a
   personal attack. It’s important to remember that a community where people feel
-  uncomfortable or threatened is not a productive one. Members of the Aesara
+  uncomfortable or threatened is not a productive one. Members of the Pytensor
   community should be respectful when dealing with other members as well as with
-  people outside the Aesara community.
+  people outside the Pytensor community.
 
 - __Be careful in the words that you choose.__ We are a community of professionals,
   and we conduct ourselves professionally. Be kind to others. Do not insult or
@@ -62,9 +62,9 @@ it by emailing [email protected].
       then stop.
 
 - __When we disagree, try to understand why.__ Disagreements, both social and
-  technical, happen all the time and Aesara is no exception. It is important
+  technical, happen all the time and Pytensor is no exception. It is important
   that we resolve disagreements and differing views constructively. Remember
-  that we’re different. Aesara benefits from its varied community and
+  that we’re different. Pytensor benefits from its varied community and
   people from a wide range of backgrounds. Different people have different
   perspectives on issues. Being unable to understand why someone holds a
   viewpoint doesn’t mean that they’re wrong. Don’t forget that it is human to

CONTRIBUTING.md

@@ -1,13 +1,13 @@
-If you want to contribute to Aesara, have a look at the instructions here:
-https://aesara.readthedocs.io/en/latest/dev_start_guide.html
+If you want to contribute to Pytensor, have a look at the instructions here:
+https://pytensor.readthedocs.io/en/latest/dev_start_guide.html
 
 ## Contribution Expectations
 
 This "Contribution Expectations" section is adapted from [Open Source
 Archetypes](https://opentechstrategies.com/archetypes) and released under a
 [CC-BY-SA](https://creativecommons.org/licenses/by-sa/4.0/) license.
 
-The current focus of the Aesara project is rapid, high quality development of a
+The current focus of the Pytensor project is rapid, high quality development of a
 hackable, pure-Python symbolic tensor library with strong support for graph
 rewrites and transpilation to multiple backends including C,
 [JAX](https://github.com/google/jax>), and
@@ -27,16 +27,16 @@ source archetypes).
 
 ## Issues and Discussions
 
-We expect that Github Issues ("issues") indicate work that should be in Aesara
+We expect that Github Issues ("issues") indicate work that should be in Pytensor
 and can be picked up immediately by a contributor. This includes bugs, which
 indicate something not working as advertised.
 
 Discussions should be created when the scope or direction of the work, though
-within the stated goals of the Aesara project, require additional clarification
+within the stated goals of the Pytensor project, require additional clarification
 or consideration before a course of action is chosen.
 
 For issues a minimal working example (MWE) is strongly recommended when relevant
 (fixing a typo in the documentation does not require a MWE). For discussions,
-MWEs are generally required. All MWEs must be implemented using Aesara. Please
-do not submit MWEs if they are not implemented in Aesara. In certain cases,
-pseudocode may be acceptable, but an Aesara implementation is always preferable.
+MWEs are generally required. All MWEs must be implemented using Pytensor. Please
+do not submit MWEs if they are not implemented in Pytensor. In certain cases,
+pseudocode may be acceptable, but an Pytensor implementation is always preferable.

DESCRIPTION.txt

@@ -1,7 +1,7 @@
-Aesara is a Python library that allows you to define, optimize, and efficiently evaluate mathematical expressions involving multi-dimensional arrays. It is built on top of NumPy_. Aesara features:
+Pytensor is a Python library that allows you to define, optimize, and efficiently evaluate mathematical expressions involving multi-dimensional arrays. It is built on top of NumPy_. Pytensor features:
 
- * **tight integration with NumPy:** a similar interface to NumPy's. numpy.ndarrays are also used internally in Aesara-compiled functions.
- * **efficient symbolic differentiation:** Aesara can compute derivatives for functions of one or many inputs.
+ * **tight integration with NumPy:** a similar interface to NumPy's. numpy.ndarrays are also used internally in Pytensor-compiled functions.
+ * **efficient symbolic differentiation:** Pytensor can compute derivatives for functions of one or many inputs.
  * **speed and stability optimizations:** avoid nasty bugs when computing expressions such as log(1 + exp(x)) for large values of x.
  * **dynamic C code generation:** evaluate expressions faster.
  * **extensive unit-testing and self-verification:** includes tools for detecting and diagnosing bugs and/or potential problems.

MANIFEST.in

@@ -6,6 +6,6 @@ global-include *.cpp
 global-include *.h
 global-include *.sh
 recursive-include doc *
-include bin/aesara-cache
+include bin/pytensor-cache
 include versioneer.py
-include aesara/_version.py
+include pytensor/_version.py

Makefile

@@ -1,8 +1,8 @@
 .PHONY: help venv conda docker check-docstyle check-format check-style format style test lint check coverage pypi
 .DEFAULT_GOAL = help
 
-PROJECT_NAME = aesara
-PROJECT_DIR = aesara/
+PROJECT_NAME = pytensor
+PROJECT_DIR = pytensor/
 PYTHON = python
 PIP = pip
 CONDA = conda