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Reprocess: Failed notebooks from PR #519 #520

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a49781e
Merge pull request #516 from neuromatch/staging
iamzoltan Jul 18, 2026
c591cfc
Reprocess notebooks from PR #519
actions-user Jul 18, 2026
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8 changes: 4 additions & 4 deletions projects/project-notebooks/Macrocircuits.ipynb
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Expand Up @@ -66,7 +66,7 @@
"source": [
"# @title Install and import feedback gadget\n",
"\n",
"!pip install vibecheck datatops --quiet\n",
"!pip install --quiet vibecheck datatops",
"\n",
"from vibecheck import DatatopsContentReviewContainer\n",
"def content_review(notebook_section: str):\n",
Expand Down Expand Up @@ -281,7 +281,7 @@
"import distutils.util\n",
"import os\n",
"import subprocess\n",
"if subprocess.run('nvidia-smi').returncode:\n",
"if shutil.which('nvidia-smi') is not None:\n",
" raise RuntimeError(\n",
" 'Cannot communicate with GPU. '\n",
" 'Make sure you are using a GPU Colab runtime. '\n",
Expand All @@ -303,13 +303,13 @@
"\"\"\")\n",
"\n",
"print('Installing dm_control...')\n",
"!pip install -q dm_control>=1.0.16\n",
"!pip install --quiet dm_control",
"\n",
"# Configure dm_control to use the EGL rendering backend (requires GPU)\n",
"%env MUJOCO_GL=egl\n",
"\n",
"!echo Installed dm_control $(pip show dm_control | grep -Po \"(?<=Version: ).+\")\n",
"!pip install -q dm-acme\n",
"!pip install --quiet dm_acme",
"!mkdir output_videos"
]
},
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2 changes: 1 addition & 1 deletion tutorials/W1D1_Generalization/W1D1_Tutorial1.ipynb
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Expand Up @@ -126,7 +126,7 @@
"source": [
"# @title Install and import feedback gadget\n",
"\n",
"!pip install vibecheck Pillow matplotlib torch torchvision transformers gradio protobuf sentencepiece gradio torchmetrics --quiet\n",
"!pip install --quiet vibecheck Pillow==10.2.0 matplotlib==3.8.3 torch torchvision==0.16 transformers==4.38.1 gradio==4.19.2 protobuf==3.20.* sentencepiece==0.2.0 gradio==4.19.2 torchmetrics",
"\n",
"from vibecheck import DatatopsContentReviewContainer\n",
"def content_review(notebook_section: str):\n",
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2 changes: 1 addition & 1 deletion tutorials/W1D1_Generalization/W1D1_Tutorial2.ipynb
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Expand Up @@ -106,7 +106,7 @@
"source": [
"# @title Install and import feedback gadget\n",
"\n",
"!pip install numpy scipy matplotlib torch tqdm vibecheck --quiet\n",
"!pip install --quiet numpy==1.26.4 scipy==1.12.0 matplotlib==3.8.3 torch tqdm==4.66.2 vibecheck",
"\n",
"from vibecheck import DatatopsContentReviewContainer\n",
"def content_review(notebook_section: str):\n",
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14 changes: 7 additions & 7 deletions tutorials/W1D3_ComparingArtificialAndBiologicalNetworks/W1D3_Tutorial1.ipynb
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Expand Up @@ -124,13 +124,13 @@
"source": [
"# @title Install dependencies\n",
"\n",
"!pip install -q ipympl ipywidgets mpl_interactions[\"jupyter\"] torchlens\n",
"!pip install -q graphviz\n",
"!pip install rsatoolbox==0.1.5\n",
"!pip install --quiet ipympl ipywidgets==8.1.2 mpl_interactions[\"jupyter\"] torchlens",
"!pip install --quiet graphviz",
"!pip install -q rsatoolbox==0.1.5",
"\n",
"# To install jupyter-matplotlib (ipympl) via pip\n",
"!pip install -q torchlens\n",
"!pip install -q numpy scikit-learn torch torchvision scipy matplotlib\n",
"!pip install --quiet torchlens",
"!pip install --quiet numpy==1.26.4 scikit-learn==1.4.1.post1 torch torchvision==0.16 scipy==1.12.0 matplotlib==3.8.3",
"\n",
"# Import future dependencies first\n",
"from __future__ import print_function\n",
Expand Down Expand Up @@ -169,7 +169,7 @@
"source": [
"# @title Install and import feedback gadget\n",
"\n",
"!pip install vibecheck datatops --quiet\n",
"!pip install --quiet vibecheck datatops",
"\n",
"from vibecheck import DatatopsContentReviewContainer\n",
"def content_review(notebook_section: str):\n",
Expand Down Expand Up @@ -691,7 +691,7 @@
" Outputs:\n",
" - model_features (dict): A dictionary with layer names as keys and extracted features as values.\n",
" \"\"\"\n",
" model_history = tl.log_forward_pass(model, imgs, layers_to_save='all', vis_opt=plot)\n",
" model_history = tl.log_forward_pass(model, imgs, layers_to_save='all', )\n",
" model_features = {}\n",
" for layer in return_layers:\n",
" model_features[layer] = model_history[layer].tensor_contents.flatten(1)\n",
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6 changes: 3 additions & 3 deletions tutorials/W2D1_Macrocircuits/W2D1_Tutorial3.ipynb
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Expand Up @@ -95,9 +95,9 @@
"source": [
"# @title Install and import feedback gadget\n",
"\n",
"!pip install vibecheck datatops --quiet\n",
"!pip install pandas --quiet\n",
"!pip install scikit-learn --quiet\n",
"!pip install --quiet vibecheck datatops",
"!pip install --quiet pandas",
"!pip install --quiet scikit-learn==1.4.1.post1",
"\n",
"from vibecheck import DatatopsContentReviewContainer\n",
"def content_review(notebook_section: str):\n",
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14 changes: 7 additions & 7 deletions tutorials/W2D2_NeuroSymbolicMethods/W2D2_Tutorial5.ipynb
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Expand Up @@ -91,13 +91,13 @@
"source": [
"# @title Install dependencies\n",
"\n",
"!pip install numpy==1.24.4 --quiet\n",
"!pip install scikit-learn==1.6.1 --quiet\n",
"!pip install scipy==1.15.3 --quiet\n",
"!pip install git+https://github.com/neuromatch/sspspace@neuromatch --no-deps --quiet\n",
"!pip install nengo==4.0.0 --quiet\n",
"!pip install nengo_spa==2.0.0 --quiet\n",
"!pip install --quiet matplotlib ipywidgets tqdm vibecheck"
"!pip install --quiet numpy==1.26.4",
"!pip install --quiet scikit-learn==1.4.1.post1",
"!pip install --quiet scipy==1.12.0",
"!pip install --quiet ",
"!pip install --quiet nengo",
"!pip install --quiet nengo_spa",
"!pip install --quiet matplotlib==3.8.3 ipywidgets==8.1.2 tqdm==4.66.2 vibecheck"
]
},
{
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2 changes: 1 addition & 1 deletion tutorials/W2D4_Macrolearning/W2D4_Tutorial5.ipynb
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Expand Up @@ -93,7 +93,7 @@
"source": [
"# @title Install and import feedback gadget\n",
"\n",
"!pip install numpy matplotlib scikit-learn ipywidgets jupyter-ui-poll torch vibecheck --quiet\n",
"!pip install --quiet numpy==1.26.4 matplotlib==3.8.3 scikit-learn==1.4.1.post1 ipywidgets==8.1.2 jupyter_ui_poll==0.2.2 torch vibecheck",
"\n",
"from vibecheck import DatatopsContentReviewContainer\n",
"def content_review(notebook_section: str):\n",
Expand Down