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refactor!: point the Colab bootstrap at autonerves (renamed from autoconf) #100

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Merged
Jammy2211 merged 2 commits into from
Jul 19, 2026
Merged

refactor!: point the Colab bootstrap at autonerves (renamed from autoconf) #100

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5e4f58c
refactor!: point the Colab bootstrap at `autonerves` (renamed from au…
claude Jul 19, 2026
ce0849e
chore: rename repo references PyAutoConf -> PyAutoNerves (CI chain + …
claude Jul 19, 2026
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4 changes: 2 additions & 2 deletions .github/scripts/smoke_install.sh
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Expand Up @@ -7,9 +7,9 @@
set -e

if [ "$PYTHON_VERSION" = "3.12" ]; then
pip install ./PyAutoConf "./PyAutoFit[optional]"
pip install ./PyAutoNerves "./PyAutoFit[optional]"
else
pip install ./PyAutoConf ./PyAutoFit
pip install ./PyAutoNerves ./PyAutoFit
fi
pip install nautilus-sampler
# NSS sampler — searches/nest.py exercises `af.NSS`, which needs the
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2 changes: 1 addition & 1 deletion .github/workflows/smoke_tests.yml
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Expand Up @@ -11,5 +11,5 @@ jobs:
smoke:
uses: PyAutoLabs/PyAutoHeart/.github/workflows/smoke-tests.yml@main
with:
chain: "PyAutoConf PyAutoFit"
chain: "PyAutoNerves PyAutoFit"
secrets: inherit
4 changes: 2 additions & 2 deletions AGENTS.md
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Expand Up @@ -124,7 +124,7 @@ onto this workspace.

PyAutoFit sits near the base of the PyAuto stack (all on the `PyAutoLabs` GitHub org):

- https://github.com/PyAutoLabs/PyAutoConf — configuration handling (the `autoconf` dependency).
- https://github.com/PyAutoLabs/PyAutoNerves — configuration handling (the `autonerves` dependency).
- https://github.com/PyAutoLabs/PyAutoFit — this library: model composition + non-linear search.
- https://github.com/PyAutoLabs/PyAutoHands — notebook generation + CI.
- https://github.com/PyAutoLabs/PyAutoGalaxy — downstream science library built **on** PyAutoFit.
Expand All @@ -134,7 +134,7 @@ PyAutoFit sits near the base of the PyAuto stack (all on the `PyAutoLabs` GitHub
beginners new to the framework.

For local development these are typically cloned as siblings of this repo (`../PyAutoFit`,
`../PyAutoConf`, `../PyAutoHands`, …).
`../PyAutoNerves`, `../PyAutoHands`, …).

## Task Workflows

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2 changes: 1 addition & 1 deletion config/general.yaml
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Expand Up @@ -41,7 +41,7 @@ test:
version:
# The compatibility FLOOR: the oldest library release whose API this
# workspace's scripts require. Preferred over workspace_version
# (autoconf/workspace.py). Bump DELIBERATELY — only when a script
# (autonerves/workspace.py). Bump DELIBERATELY — only when a script
# starts needing new API — never per release. Must always name an
# INSTALLABLE (non-yanked) release.
minimum_library_version: 2026.7.9.1
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/analysis.ipynb
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Expand Up @@ -50,12 +50,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/configs.ipynb
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Expand Up @@ -53,12 +53,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/latent_variables.ipynb
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Expand Up @@ -63,12 +63,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/model.ipynb
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Expand Up @@ -82,12 +82,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/model_internal.ipynb
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Expand Up @@ -57,12 +57,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/multi_level_model.ipynb
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Expand Up @@ -55,12 +55,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/multiple_datasets.ipynb
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Expand Up @@ -75,12 +75,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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6 changes: 3 additions & 3 deletions notebooks/cookbooks/result.ipynb
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Expand Up @@ -93,12 +93,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
Expand Down Expand Up @@ -731,7 +731,7 @@
"custom files can be written to the `files` folder and become accessible via the database.\n",
"\n",
"To save the objects in a human readable and loaded .json format, the `data` and `noise_map`, which are natively stored\n",
"as 1D numpy arrays, are converted to a suitable dictionary output format. This uses the **PyAutoConf** method\n",
"as 1D numpy arrays, are converted to a suitable dictionary output format. This uses the **PyAutoNerves** method\n",
"`to_dict`."
]
},
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/samples.ipynb
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Expand Up @@ -67,12 +67,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/cookbooks/search.ipynb
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Expand Up @@ -58,12 +58,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/features/expectation_propagation.ipynb
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Expand Up @@ -79,12 +79,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/features/graphical_models.ipynb
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Expand Up @@ -80,12 +80,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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6 changes: 3 additions & 3 deletions notebooks/features/interpolate.ipynb
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Expand Up @@ -72,12 +72,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
Expand Down Expand Up @@ -354,7 +354,7 @@
"source": [
"__Serialization__\n",
"\n",
"The interpolator and model can be serialized to a .json file using **PyAutoConf**'s dedicated serialization methods. \n",
"The interpolator and model can be serialized to a .json file using **PyAutoNerves**'s dedicated serialization methods. \n",
"\n",
"This means an interpolator can easily be loaded into other scripts."
]
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4 changes: 2 additions & 2 deletions notebooks/features/model_comparison.ipynb
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Expand Up @@ -84,12 +84,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/features/search_chaining.ipynb
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Expand Up @@ -103,12 +103,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/features/search_grid_search.ipynb
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Expand Up @@ -85,12 +85,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/features/sensitivity_mapping.ipynb
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Expand Up @@ -80,12 +80,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/features/shared_analysis_state.ipynb
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Expand Up @@ -88,12 +88,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/overview/overview_1_the_basics.ipynb
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Expand Up @@ -75,12 +75,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/overview/overview_2_scientific_workflow.ipynb
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Expand Up @@ -75,12 +75,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/overview/overview_3_statistical_methods.ipynb
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Expand Up @@ -156,12 +156,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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4 changes: 2 additions & 2 deletions notebooks/plot/dynesty_plotter.ipynb
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Expand Up @@ -47,12 +47,12 @@
" import sys\n",
"\n",
" subprocess.check_call(\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autoconf\", \"--no-deps\"]\n",
" [sys.executable, \"-m\", \"pip\", \"install\", \"autonerves\", \"--no-deps\"]\n",
" )\n",
"except ImportError:\n",
" pass\n",
"\n",
"from autoconf import setup_colab\n",
"from autonerves import setup_colab\n",
"\n",
"setup_colab.setup(\"autofit\")"
]
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