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ori-kron-wisori-kron-wis
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Merge pull request #512 from scverse/Ori-update-tutorials2
typo in totalvi tutorial
2 parents 4131ed8 + 4ad1d3f commit 413ed6c

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‎multimodal/totalVI.ipynb‎

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"outputId": "8cb9955e-dc7d-496f-a3a0-5eef268ffcca"
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},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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" \u001b[1;31merror\u001b[0m: \u001b[1msubprocess-exited-with-error\u001b[0m\n",
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" \n",
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" \u001b[31m×\u001b[0m \u001b[32mPreparing metadata \u001b[0m\u001b[1;32m(\u001b[0m\u001b[32mpyproject.toml\u001b[0m\u001b[1;32m)\u001b[0m did not run successfully.\n",
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" \u001b[31m│\u001b[0m exit code: \u001b[1;36m1\u001b[0m\n",
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" \u001b[31m╰─>\u001b[0m \u001b[31m[47 lines of output]\u001b[0m\n",
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" \u001b[31m \u001b[0m \u001b[36m\u001b[1m+ meson setup /tmp/pip-install-t15wsvjs/scipy_cb18514c915d4ad08e1cd49b59ae58f1 /tmp/pip-install-t15wsvjs/scipy_cb18514c915d4ad08e1cd49b59ae58f1/.mesonpy-yq2pwzr3 -Dbuildtype=release -Db_ndebug=if-release -Db_vscrt=md --native-file=/tmp/pip-install-t15wsvjs/scipy_cb18514c915d4ad08e1cd49b59ae58f1/.mesonpy-yq2pwzr3/meson-python-native-file.ini\u001b[0m\n",
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" \u001b[31m \u001b[0m The Meson build system\n",
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" \u001b[31m \u001b[0m Version: 1.10.1\n",
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" \u001b[31m \u001b[0m Source dir: /tmp/pip-install-t15wsvjs/scipy_cb18514c915d4ad08e1cd49b59ae58f1\n",
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" \u001b[31m \u001b[0m Build dir: /tmp/pip-install-t15wsvjs/scipy_cb18514c915d4ad08e1cd49b59ae58f1/.mesonpy-yq2pwzr3\n",
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" \u001b[31m \u001b[0m Build type: native build\n",
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" \u001b[31m \u001b[0m Project name: scipy\n",
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" \u001b[31m \u001b[0m Project version: 1.14.0\n",
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" \u001b[31m \u001b[0m C compiler for the host machine: cc (gcc 13.3.0 \"cc (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0\")\n",
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" \u001b[31m \u001b[0m C linker for the host machine: cc ld.bfd 2.42\n",
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" \u001b[31m \u001b[0m C++ compiler for the host machine: c++ (gcc 13.3.0 \"c++ (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0\")\n",
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" \u001b[31m \u001b[0m C++ linker for the host machine: c++ ld.bfd 2.42\n",
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" \u001b[31m \u001b[0m Cython compiler for the host machine: cython (cython 3.0.12)\n",
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" \u001b[31m \u001b[0m Host machine cpu family: x86_64\n",
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" \u001b[31m \u001b[0m Host machine cpu: x86_64\n",
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" \u001b[31m \u001b[0m Program python found: YES (/opt/anaconda3/envs/scvi_new/bin/python3.13)\n",
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" \u001b[31m \u001b[0m Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1\n",
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" \u001b[31m \u001b[0m Run-time dependency python found: YES 3.13\n",
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" \u001b[31m \u001b[0m Program cython found: YES (/tmp/pip-build-env-ldn1chrx/overlay/bin/cython)\n",
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" \u001b[31m \u001b[0m Compiler for C supports arguments -Wno-unused-but-set-variable: YES\n",
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" \u001b[31m \u001b[0m Compiler for C supports arguments -Wno-unused-function: YES\n",
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" \u001b[31m \u001b[0m Compiler for C supports arguments -Wno-conversion: YES\n",
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" \u001b[31m \u001b[0m Compiler for C supports arguments -Wno-misleading-indentation: YES\n",
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" \u001b[31m \u001b[0m Library m found: YES\n",
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" \u001b[31m \u001b[0m Fortran compiler for the host machine: gfortran (gcc 13.3.0 \"GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0\")\n",
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" \u001b[31m \u001b[0m Fortran linker for the host machine: gfortran ld.bfd 2.42\n",
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" \u001b[31m \u001b[0m Compiler for Fortran supports arguments -Wno-conversion: YES\n",
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" \u001b[31m \u001b[0m Checking if \"-Wl,--version-script\" links: YES\n",
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" \u001b[31m \u001b[0m Program tools/generate_f2pymod.py found: YES (/opt/anaconda3/envs/scvi_new/bin/python3.13 /tmp/pip-install-t15wsvjs/scipy_cb18514c915d4ad08e1cd49b59ae58f1/tools/generate_f2pymod.py)\n",
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" \u001b[31m \u001b[0m Program scipy/_build_utils/tempita.py found: YES (/opt/anaconda3/envs/scvi_new/bin/python3.13 /tmp/pip-install-t15wsvjs/scipy_cb18514c915d4ad08e1cd49b59ae58f1/scipy/_build_utils/tempita.py)\n",
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" \u001b[31m \u001b[0m Program pythran found: YES 0.16.1 0.16.1 (/tmp/pip-build-env-ldn1chrx/overlay/bin/pythran)\n",
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" \u001b[31m \u001b[0m Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1\n",
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" \u001b[31m \u001b[0m Did not find CMake 'cmake'\n",
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" \u001b[31m \u001b[0m Found CMake: NO\n",
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" \u001b[31m \u001b[0m Run-time dependency xsimd found: NO (tried pkgconfig and cmake)\n",
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" \u001b[31m \u001b[0m Run-time dependency threads found: YES\n",
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" \u001b[31m \u001b[0m Library npymath found: YES\n",
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" \u001b[31m \u001b[0m pybind11-config found: YES (/tmp/pip-build-env-ldn1chrx/overlay/bin/pybind11-config) 2.12.1\n",
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" \u001b[31m \u001b[0m Run-time dependency pybind11 found: YES 2.12.1\n",
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" \u001b[31m \u001b[0m Program f2py found: YES (/tmp/pip-build-env-ldn1chrx/overlay/bin/f2py)\n",
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" \u001b[31m \u001b[0m Run-time dependency scipy-openblas found: NO (tried pkgconfig)\n",
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" \u001b[31m \u001b[0m Run-time dependency openblas found: NO (tried pkgconfig and cmake)\n",
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" \u001b[31m \u001b[0m Run-time dependency openblas found: NO (tried pkgconfig)\n",
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" \u001b[31m \u001b[0m \n",
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" \u001b[31m \u001b[0m ../scipy/meson.build:216:9: ERROR: Dependency \"OpenBLAS\" not found, tried pkgconfig\n",
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" \u001b[31m \u001b[0m \n",
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" \u001b[31m \u001b[0m A full log can be found at /tmp/pip-install-t15wsvjs/scipy_cb18514c915d4ad08e1cd49b59ae58f1/.mesonpy-yq2pwzr3/meson-logs/meson-log.txt\n",
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" \u001b[31m \u001b[0m \u001b[31m[end of output]\u001b[0m\n",
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" \n",
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" \u001b[1;35mnote\u001b[0m: This error originates from a subprocess, and is likely not a problem with pip.\n",
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"\u001b[1;31merror\u001b[0m: \u001b[1mmetadata-generation-failed\u001b[0m\n",
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"\n",
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"\u001b[31m×\u001b[0m Encountered error while generating package metadata.\n",
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"\u001b[31m╰─>\u001b[0m scipy\n",
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"\n",
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"\u001b[1;35mnote\u001b[0m: This is an issue with the package mentioned above, not pip.\n",
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"\u001b[1;36mhint\u001b[0m: See above for details.\n"
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]
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},
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{
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@@ -123,7 +55,6 @@
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}
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],
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"source": [
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"!pip install --quiet \"scipy==1.14\"\n",
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"\n",

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