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Tutorials/1-getting-started fix colab links and add notebook installations #503

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acbb771
feat: add necessary library installations in every notebook
foca13 Jul 13, 2026
f4c438d
fix: add missing library installation
foca13 Jul 13, 2026
85dabcb
fix: installation line
foca13 Jul 13, 2026
7c8215d
fix: colab links
foca13 Jul 13, 2026
0982cc5
fix: cell outputs
foca13 Jul 13, 2026
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8 changes: 5 additions & 3 deletions tutorials/1-getting-started/DTGS101_intro.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -11,10 +11,12 @@
},
{
"cell_type": "code",
"execution_count": 1,
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"# Install dependencies\n",
"!pip install deeplay seaborn\n",
"# !pip install deeptrack # Uncomment if running on Colab/Kaggle."
]
},
Expand Down Expand Up @@ -972,7 +974,7 @@
],
"metadata": {
"kernelspec": {
"display_name": "py_env_book",
"display_name": "deeptrack2",
"language": "python",
"name": "python3"
},
Expand All @@ -986,7 +988,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.10.15"
"version": "3.13.14"
}
},
"nbformat": 4,
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4 changes: 3 additions & 1 deletion tutorials/1-getting-started/DTGS111_datafiles.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -11,10 +11,12 @@
},
{
"cell_type": "code",
"execution_count": 1,
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"# Install dependencies\n",
"!pip install deeplay opencv-python torch torchmetrics torchvision\n",
"# !pip install deeptrack # Uncomment if running on Colab/Kaggle."
]
},
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6 changes: 4 additions & 2 deletions tutorials/1-getting-started/DTGS121_tracking_particle_cnn.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -11,11 +11,13 @@
},
{
"cell_type": "code",
"execution_count": 1,
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"# !pip install deeplay deeptrack # Uncomment if running on Colab/Kaggle."
"# Install dependencies\n",
"!pip install deeplay seaborn\n",
"# !pip install deeptrack # Uncomment if running on Colab/Kaggle."
]
},
{
Expand Down
12 changes: 7 additions & 5 deletions tutorials/1-getting-started/DTGS126_characterizing_aberrations_cnn.ipynb
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Expand Up @@ -6,16 +6,18 @@
"source": [
"# DTGS126. Characterizing Aberrations with a CNN\n",
"\n",
"<a href=\"https://colab.research.google.com/github/softmatterlab/DeepTrack-2.0/blob/develop/examples/tutorials/1-getting-started/DTSG126_characterizing_aberrations_cnn.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
"<a href=\"https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/1-getting-started/DTGS126_characterizing_aberrations_cnn.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
]
},
{
"cell_type": "code",
"execution_count": 1,
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"# !pip install deeplay deeptrack # Uncomment if running on Colab/Kaggle."
"# Install dependencies\n",
"!pip install deeplay torch\n",
"# !pip install deeptrack # Uncomment if running on Colab/Kaggle."
]
},
{
Expand Down Expand Up @@ -556,7 +558,7 @@
],
"metadata": {
"kernelspec": {
"display_name": "py_env_book (3.10.15)",
"display_name": "deeptrack2",
"language": "python",
"name": "python3"
},
Expand All @@ -570,7 +572,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.10.15"
"version": "3.13.14"
}
},
"nbformat": 4,
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10 changes: 6 additions & 4 deletions tutorials/1-getting-started/DTGS127_characterizing_aberrations_optuna.ipynb
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Expand Up @@ -7,16 +7,18 @@
"source": [
"# Characterizing Aberrations with Optuna\n",
"\n",
"<a href=\"https://colab.research.google.com/github/softmatterlab/DeepTrack-2.0/blob/develop/examples/tutorials/1-getting-started/DTSG127_characterizing_aberrations_optuna.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
"<a href=\"https://colab.research.google.com/github/DeepTrackAI/DeepTrack2/blob/develop/tutorials/1-getting-started/DTGS127_characterizing_aberrations_optuna.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
]
},
{
"cell_type": "code",
"execution_count": 1,
"execution_count": null,
"id": "1d3be940",
"metadata": {},
"outputs": [],
"source": [
"# Install dependencies\n",
"!pip install optuna\n",
"# !pip install deeptrack optuna # Uncomment if running on Colab/Kaggle."
]
},
Expand Down Expand Up @@ -932,7 +934,7 @@
],
"metadata": {
"kernelspec": {
"display_name": "py_env_book",
"display_name": "deeptrack2",
"language": "python",
"name": "python3"
},
Expand All @@ -946,7 +948,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.10.15"
"version": "3.13.14"
}
},
"nbformat": 4,
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10 changes: 6 additions & 4 deletions tutorials/1-getting-started/DTGS151_unsupervised_object_detection_with_lodestar.ipynb
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Expand Up @@ -12,7 +12,7 @@
},
{
"cell_type": "code",
"execution_count": 1,
"execution_count": null,
"id": "98c6d466",
"metadata": {
"execution": {
Expand All @@ -24,7 +24,9 @@
},
"outputs": [],
"source": [
"# !pip install deeplay deeptrack # Uncomment if running on Colab/Kaggle."
"# Install dependencies\n",
"!pip install deeplay torch torchvision\n",
"# !pip install deeptrack # Uncomment if running on Colab/Kaggle."
]
},
{
Expand Down Expand Up @@ -607,7 +609,7 @@
],
"metadata": {
"kernelspec": {
"display_name": "py_env_book (3.10.15)",
"display_name": "deeptrack2",
"language": "python",
"name": "python3"
},
Expand All @@ -621,7 +623,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.10.15"
"version": "3.13.14"
}
},
"nbformat": 4,
Expand Down
4 changes: 3 additions & 1 deletion tutorials/1-getting-started/DTGS161_torch_fitting.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -11,10 +11,12 @@
},
{
"cell_type": "code",
"execution_count": 1,
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"# Install dependencies\n",
"!pip install torch\n",
"# !pip install deeptrack # Uncomment if running on Colab/Kaggle."
]
},
Expand Down