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Timedependens #11

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8683f93
Update for time dependend data
myksa Oct 31, 2025
6eafa6d
Cleared example outputs
myksa Nov 3, 2025
a1f029b
Fixing small formation errors
myksa Nov 3, 2025
ed31c14
removed mpes
myksa Nov 5, 2025
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4 changes: 2 additions & 2 deletions examples/01_Hexagonal_tiling.ipynb
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Expand Up @@ -99,7 +99,7 @@
],
"metadata": {
"kernelspec": {
"display_name": ".pyenv38",
"display_name": ".venv",
"language": "python",
"name": "python3"
},
Expand All @@ -113,7 +113,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.12"
"version": "3.11.2"
}
},
"nbformat": 4,
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4 changes: 2 additions & 2 deletions examples/02_Brillouin_zoning.ipynb
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Expand Up @@ -277,7 +277,7 @@
],
"metadata": {
"kernelspec": {
"display_name": ".pyenv38",
"display_name": ".venv",
"language": "python",
"name": "python3"
},
Expand All @@ -291,7 +291,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.12"
"version": "3.11.2"
}
},
"nbformat": 4,
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4 changes: 2 additions & 2 deletions examples/03_preprocessing.ipynb
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Expand Up @@ -210,7 +210,7 @@
],
"metadata": {
"kernelspec": {
"display_name": ".pyenv38",
"display_name": ".venv",
"language": "python",
"name": "python3"
},
Expand All @@ -224,7 +224,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.12"
"version": "3.11.2"
},
"pycharm": {
"stem_cell": {
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44 changes: 32 additions & 12 deletions examples/04_mpes_reconstruction_mrf.ipynb
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Expand Up @@ -30,6 +30,17 @@
"import os"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"import tensorflow as tf\n",
"\n",
"tf.config.list_physical_devices('GPU')"
]
},
{
"cell_type": "code",
"execution_count": null,
Expand All @@ -54,7 +65,12 @@
"E = data['E']\n",
"kx = data['kx']\n",
"ky = data['ky']\n",
"I = data['V']"
"I_1 = data['V']\n",
"\n",
"I_2 = np.tile(I_1, (10, 1, 1, 1))\n",
"I = np.transpose(I_2, axes=(1, 2, 3, 0))\n",
"\n",
"t = np.linspace(0, 9, 10)"
]
},
{
Expand All @@ -64,7 +80,11 @@
"outputs": [],
"source": [
"# Create MRF model\n",
"mrf = MrfRec(E=E, kx=kx, ky=ky, I=I, eta=.12)\n",
"mrf = MrfRec(E=E, kx=kx, ky=ky, I=I, delay = t, eta=.12)\n",
"#mrf.symmetrizeI(mirror=False)\n",
"#mrf.symmetrizeI(rotational=False)\n",
"#mrf.normalizeI(kernel_size=(30, 30, 40), n_bins=256, clip_limit=0.1, use_gpu=True)\n",
"#mrf.smoothenI(sigma=(.8, .8, 1.))\n",
"mrf.I_normalized = True"
]
},
Expand Down Expand Up @@ -99,8 +119,8 @@
"outputs": [],
"source": [
"# Plot slices with initialiation to check offset and scale\n",
"mrf.plotI(ky=0, plotBandInit=True, cmapName='coolwarm')\n",
"mrf.plotI(kx=0, plotBandInit=True, cmapName='coolwarm')"
"mrf.plotI(ky=0, time = 0, plotBandInit=True, cmapName='coolwarm')\n",
"mrf.plotI(kx=0, time = 0, plotBandInit=True, cmapName='coolwarm')"
]
},
{
Expand All @@ -120,7 +140,7 @@
"source": [
"# Run optimization to perform reconstruction\n",
"eta = .1\n",
"n_epochs = 150\n",
"n_epochs = 100\n",
"\n",
"mrf.eta = eta\n",
"mrf.iter_para(n_epochs)"
Expand All @@ -135,11 +155,11 @@
"outputs": [],
"source": [
"# Plot results\n",
"mrf.plotBands()\n",
"mrf.plotI(ky=0, plotBand=True, plotBandInit=True, plotSliceInBand=False, cmapName='coolwarm')\n",
"mrf.plotI(ky=0.5, plotBand=True, plotBandInit=True, plotSliceInBand=False, cmapName='coolwarm')\n",
"mrf.plotI(kx=0, plotBand=True, plotBandInit=True, plotSliceInBand=False, cmapName='coolwarm')\n",
"mrf.plotI(kx=0.5, plotBand=True, plotBandInit=True, plotSliceInBand=False, cmapName='coolwarm')"
"#mrf.plotBands()\n",
"mrf.plotI(ky=0, plotBand=True, plotBandInit=True, plotSliceInBand=False, cmapName='coolwarm', time = 0)\n",
"mrf.plotI(ky=0.5, plotBand=True, plotBandInit=True, plotSliceInBand=False, cmapName='coolwarm', time = 0)\n",
"mrf.plotI(kx=0, plotBand=True, plotBandInit=True, plotSliceInBand=False, cmapName='coolwarm', time = 0)\n",
"mrf.plotI(kx=0.5, plotBand=True, plotBandInit=True, plotSliceInBand=False, cmapName='coolwarm', time = 0)"
]
},
{
Expand All @@ -163,7 +183,7 @@
],
"metadata": {
"kernelspec": {
"display_name": ".pyenv38",
"display_name": ".venv",
"language": "python",
"name": "python3"
},
Expand All @@ -177,7 +197,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.12"
"version": "3.11.2"
}
},
"nbformat": 4,
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4 changes: 2 additions & 2 deletions examples/05_synthetic_data_and_initial_conditions.ipynb
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Expand Up @@ -375,7 +375,7 @@
],
"metadata": {
"kernelspec": {
"display_name": ".pyenv38",
"display_name": ".venv",
"language": "python",
"name": "python3"
},
Expand All @@ -389,7 +389,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.12"
"version": "3.11.2"
}
},
"nbformat": 4,
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