Automated update for tuning/autotune_new_model.ipynb (#262)

Execute tuning/autotune_new_model.ipynb Co-authored-by: martinkim0 <[email protected]> Co-authored-by: Martin Kim <[email protected]>
scverse · Feb 12, 2024 · c30829d · c30829d
1 parent 778e951
commit c30829d
Showing 1 changed file with 67 additions and 44 deletions.
diff --git a/tuning/autotune_new_model.ipynb b/tuning/autotune_new_model.ipynb
@@ -56,13 +56,36 @@
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- "shell.execute_reply": "2023-12-07T18:54:53.970760Z"
+ "iopub.execute_input": "2024-02-12T19:14:22.869532Z",
+ "iopub.status.busy": "2024-02-12T19:14:22.869364Z",
+ "iopub.status.idle": "2024-02-12T19:14:25.605821Z",
+ "shell.execute_reply": "2024-02-12T19:14:25.605371Z"
  }
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- "outputs": [],
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "\u001b[33mWARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv\u001b[0m\u001b[33m\r\n",
+ "\u001b[0m"
+ ]
+ },
+ {
+ "name": "stderr",
+ "output_type": "stream",
+ "text": [
+ "/env/lib/python3.11/site-packages/scvi_colab/_core.py:41: UserWarning: \n",
+ " Not currently in Google Colab environment.\n",
+ "\n",
+ " Please run with `run_outside_colab=True` to override.\n",
+ "\n",
+ " Returning with no further action.\n",
+ " \n",
+ " warn(\n"
+ ]
+ }
+ ],
  "source": [
  "!pip install --quiet scvi-colab\n",
  "from scvi_colab import install\n",
@@ -75,10 +98,10 @@
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- "shell.execute_reply": "2023-12-07T18:54:57.174126Z"
+ "iopub.execute_input": "2024-02-12T19:14:25.607885Z",
+ "iopub.status.busy": "2024-02-12T19:14:25.607523Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.011337Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.010813Z"
  }
  },
  "outputs": [],
@@ -98,10 +121,10 @@
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- "iopub.status.idle": "2023-12-07T18:54:57.179176Z",
- "shell.execute_reply": "2023-12-07T18:54:57.178905Z"
+ "iopub.execute_input": "2024-02-12T19:14:29.013308Z",
+ "iopub.status.busy": "2024-02-12T19:14:29.013139Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.016460Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.016169Z"
  }
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  "outputs": [
@@ -146,10 +169,10 @@
  "execution_count": 4,
  "metadata": {
  "execution": {
- "iopub.execute_input": "2023-12-07T18:54:57.198115Z",
- "iopub.status.busy": "2023-12-07T18:54:57.197992Z",
- "iopub.status.idle": "2023-12-07T18:54:57.969599Z",
- "shell.execute_reply": "2023-12-07T18:54:57.969115Z"
+ "iopub.execute_input": "2024-02-12T19:14:29.018199Z",
+ "iopub.status.busy": "2024-02-12T19:14:29.017987Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.931182Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.930709Z"
  }
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  "outputs": [],
@@ -222,10 +245,10 @@
  "execution_count": 5,
  "metadata": {
  "execution": {
- "iopub.execute_input": "2023-12-07T18:54:57.971456Z",
- "iopub.status.busy": "2023-12-07T18:54:57.971337Z",
- "iopub.status.idle": "2023-12-07T18:54:57.974931Z",
- "shell.execute_reply": "2023-12-07T18:54:57.974495Z"
+ "iopub.execute_input": "2024-02-12T19:14:29.933197Z",
+ "iopub.status.busy": "2024-02-12T19:14:29.933059Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.936982Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.936545Z"
  }
  },
  "outputs": [],
@@ -270,18 +293,18 @@
  "execution_count": 6,
  "metadata": {
  "execution": {
- "iopub.execute_input": "2023-12-07T18:54:57.976450Z",
- "iopub.status.busy": "2023-12-07T18:54:57.976302Z",
- "iopub.status.idle": "2023-12-07T18:54:57.985810Z",
- "shell.execute_reply": "2023-12-07T18:54:57.985547Z"
+ "iopub.execute_input": "2024-02-12T19:14:29.938620Z",
+ "iopub.status.busy": "2024-02-12T19:14:29.938487Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.949604Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.949319Z"
  }
  },
  "outputs": [
  {
  "name": "stderr",
  "output_type": "stream",
  "text": [
- "/env/lib/python3.11/site-packages/scvi/autotune/_manager.py:57: UserWarning: No default search space available for LassoTunable.\n",
+ "/env/lib/python3.11/site-packages/scvi/autotune/_manager.py:58: UserWarning: No default search space available for LassoTunable.\n",
  " self._defaults = self._get_defaults(self._model_cls)\n"
  ]
  },
@@ -394,10 +417,10 @@
  "execution_count": 7,
  "metadata": {
  "execution": {
- "iopub.execute_input": "2023-12-07T18:54:57.987224Z",
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- "iopub.status.idle": "2023-12-07T18:54:57.990823Z",
- "shell.execute_reply": "2023-12-07T18:54:57.990554Z"
+ "iopub.execute_input": "2024-02-12T19:14:29.951316Z",
+ "iopub.status.busy": "2024-02-12T19:14:29.951101Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.955183Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.954897Z"
  }
  },
  "outputs": [],
@@ -452,10 +475,10 @@
  "execution_count": 8,
  "metadata": {
  "execution": {
- "iopub.execute_input": "2023-12-07T18:54:57.992163Z",
- "iopub.status.busy": "2023-12-07T18:54:57.992054Z",
- "iopub.status.idle": "2023-12-07T18:54:57.998183Z",
- "shell.execute_reply": "2023-12-07T18:54:57.997887Z"
+ "iopub.execute_input": "2024-02-12T19:14:29.956876Z",
+ "iopub.status.busy": "2024-02-12T19:14:29.956628Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.963144Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.962865Z"
  }
  },
  "outputs": [
@@ -570,10 +593,10 @@
  "execution_count": 9,
  "metadata": {
  "execution": {
- "iopub.execute_input": "2023-12-07T18:54:57.999692Z",
- "iopub.status.busy": "2023-12-07T18:54:57.999459Z",
- "iopub.status.idle": "2023-12-07T18:54:58.001659Z",
- "shell.execute_reply": "2023-12-07T18:54:58.001397Z"
+ "iopub.execute_input": "2024-02-12T19:14:29.964805Z",
+ "iopub.status.busy": "2024-02-12T19:14:29.964598Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.967002Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.966715Z"
  }
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  "outputs": [],
@@ -607,18 +630,18 @@
  "execution_count": 10,
  "metadata": {
  "execution": {
- "iopub.execute_input": "2023-12-07T18:54:58.003124Z",
- "iopub.status.busy": "2023-12-07T18:54:58.002907Z",
- "iopub.status.idle": "2023-12-07T18:54:58.009191Z",
- "shell.execute_reply": "2023-12-07T18:54:58.008932Z"
+ "iopub.execute_input": "2024-02-12T19:14:29.968620Z",
+ "iopub.status.busy": "2024-02-12T19:14:29.968407Z",
+ "iopub.status.idle": "2024-02-12T19:14:29.975324Z",
+ "shell.execute_reply": "2024-02-12T19:14:29.975040Z"
  }
  },
  "outputs": [
  {
  "name": "stderr",
  "output_type": "stream",
  "text": [
- "/env/lib/python3.11/site-packages/scvi/autotune/_manager.py:57: UserWarning: No default search space available for LassoModel.\n",
+ "/env/lib/python3.11/site-packages/scvi/autotune/_manager.py:58: UserWarning: No default search space available for LassoModel.\n",
  " self._defaults = self._get_defaults(self._model_cls)\n"
  ]
  },
@@ -734,7 +757,7 @@
  "name": "python",
  "nbconvert_exporter": "python",
  "pygments_lexer": "ipython3",
- "version": "3.11.6"
+ "version": "3.11.7"
  },
  "vscode": {
  "interpreter": {