Commit 8f74fcb8 authored by Michael Osthege's avatar Michael Osthege Committed by Junpeng Lao

re-run almost all notebooks that use NUTS

parent fff0f943
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......@@ -105,7 +105,7 @@
" }\n",
" </style>\n",
" <progress value='8000' class='' max='8000' style='width:300px; height:20px; vertical-align: middle;'></progress>\n",
" 100.00% [8000/8000 00:02<00:00 Sampling 4 chains, 0 divergences]\n",
" 100.00% [8000/8000 00:06<00:00 Sampling 4 chains, 0 divergences]\n",
" </div>\n",
" "
],
......@@ -120,8 +120,7 @@
"name": "stderr",
"output_type": "stream",
"text": [
"Sampling 4 chains for 1_000 tune and 1_000 draw iterations (4_000 + 4_000 draws total) took 4 seconds.\n",
"The acceptance probability does not match the target. It is 0.6249748520956052, but should be close to 0.8. Try to increase the number of tuning steps.\n"
"Sampling 4 chains for 1_000 tune and 1_000 draw iterations (4_000 + 4_000 draws total) took 8 seconds.\n"
]
}
],
......@@ -250,11 +249,11 @@
{
"data": {
"text/plain": [
"({'p_logodds__': array(0.), 'ni': array(0)},\n",
"({'p_logodds__': array(0.20397629), 'ni': array(0)},\n",
" [{'tune': True,\n",
" 'scaling': array([1.]),\n",
" 'accept': 0.012699688055762577,\n",
" 'accepted': False}])"
" 'accept': 0.7662261757775519,\n",
" 'accepted': True}])"
]
},
"execution_count": 6,
......@@ -289,7 +288,7 @@
{
"data": {
"text/plain": [
"{'p_logodds__': array(0.), 'ni': array(0)}"
"{'p_logodds__': array(0.20397629), 'ni': array(0)}"
]
},
"execution_count": 7,
......@@ -324,8 +323,8 @@
{
"data": {
"text/plain": [
"[<pymc3.step_methods.metropolis.Metropolis at 0x7f1bae476410>,\n",
" <pymc3.step_methods.metropolis.BinaryGibbsMetropolis at 0x7f1baa12c350>]"
"[<pymc3.step_methods.metropolis.Metropolis at 0x7fddc61d4910>,\n",
" <pymc3.step_methods.metropolis.BinaryGibbsMetropolis at 0x7fddc6095bd0>]"
]
},
"execution_count": 8,
......@@ -366,8 +365,8 @@
{
"data": {
"text/plain": [
"[<pymc3.step_methods.metropolis.BinaryGibbsMetropolis at 0x7f1baa12c350>,\n",
" <pymc3.step_methods.metropolis.Metropolis at 0x7f1bae476410>]"
"[<pymc3.step_methods.metropolis.BinaryGibbsMetropolis at 0x7fddc6095bd0>,\n",
" <pymc3.step_methods.metropolis.Metropolis at 0x7fddc61d4910>]"
]
},
"execution_count": 9,
......@@ -413,10 +412,10 @@
"name": "stdout",
"output_type": "stream",
"text": [
"numpy 1.18.5\n",
"pymc3 3.9.0\n",
"theano 1.0.4\n",
"numpy 1.18.5\n",
"last updated: Fri Jun 12 2020 \n",
"last updated: Mon Jun 15 2020 \n",
"\n",
"CPython 3.7.7\n",
"IPython 7.15.0\n",
......@@ -446,7 +445,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.6.10"
"version": "3.7.7"
},
"latex_envs": {
"LaTeX_envs_menu_present": true,
......
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