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Merge pull request #56 from scverse/jhong/scvicolab
Use `scvi-colab` for installs
2 parents 7ee45bb + 108a90f commit d6fee3b

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‎AutoZI_tutorial.ipynb‎

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},
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"outputs": [],
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"source": [
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"import sys\n",
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"\n",
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"#if branch is stable, will install via pypi, else will install from source\n",
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"branch = \"stable\"\n",
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"IN_COLAB = \"google.colab\" in sys.modules\n",
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"\n",
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"if IN_COLAB and branch == \"stable\":\n",
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" !pip install --quiet scvi-tools[tutorials]\n",
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"elif IN_COLAB and branch != \"stable\":\n",
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" !pip install --quiet --upgrade jsonschema\n",
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" !pip install --quiet git+https://github.com/yoseflab/scvi-tools@$branch#egg=scvi-tools[tutorials]"
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"install()"
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]
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‎DestVI_tutorial.ipynb‎

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},
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"outputs": [],
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"source": [
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"%%capture\n",
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"import sys\n",
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"\n",
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"#if True, will install via pypi, else will install from source\n",
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"stable = True\n",
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"IN_COLAB = \"google.colab\" in sys.modules\n",
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"\n",
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"if IN_COLAB and stable:\n",
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" !pip install --quiet scvi-tools[tutorials]\n",
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"elif IN_COLAB and not stable:\n",
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" !pip install --quiet --upgrade jsonschema\n",
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" !pip install --quiet git+https://github.com/yoseflab/scvi-tools@master#egg=scvi-tools[tutorials]"
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"install()"
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]
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},
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{
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"name": "python",
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"nbconvert_exporter": "python",
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"pygments_lexer": "ipython3",
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"version": "3.9.7"
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"version": "3.9.10"
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}
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"nbformat": 4,

‎MultiVI_tutorial.ipynb‎

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},
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"outputs": [],
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"source": [
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"%%capture\n",
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"import sys\n",
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"\n",
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"# If True, will install via pypi, else will install from source\n",
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"stable = True\n",
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"IN_COLAB = \"google.colab\" in sys.modules\n",
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"\n",
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"if IN_COLAB and stable:\n",
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" !pip install --quiet scvi-tools\n",
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"elif IN_COLAB and not stable:\n",
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" !pip install --quiet --upgrade jsonschema\n",
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" !pip install --quiet git+https://github.com/yoseflab/scvi-tools@master#egg=scvi-tools[tutorials]"
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"install()"
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]
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{

‎PeakVI.ipynb‎

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‎amortized_lda.ipynb‎

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},
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"outputs": [],
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"source": [
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"%%capture\n",
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"import sys\n",
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"\n",
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"#if branch is stable, will install via pypi, else will install from source\n",
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"branch = \"master\"\n",
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"IN_COLAB = \"google.colab\" in sys.modules\n",
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"\n",
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"if IN_COLAB and branch == \"stable\":\n",
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" !pip install --quiet scvi-tools[tutorials]\n",
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"elif IN_COLAB and branch != \"stable\":\n",
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" !pip install --quiet --upgrade jsonschema\n",
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" !pip install --quiet git+https://github.com/yoseflab/scvi-tools@$branch#egg=scvi-tools[tutorials]"
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"install()"
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]
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},
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‎api_overview.ipynb‎

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},
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"source": [
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"%%capture\n",
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"import sys\n",
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"\n",
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"#if branch is stable, will install via pypi, else will install from source\n",
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"branch = \"stable\"\n",
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"IN_COLAB = \"google.colab\" in sys.modules\n",
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"\n",
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"if IN_COLAB and branch == \"stable\":\n",
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" !pip install --quiet scvi-tools[tutorials]\n",
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"elif IN_COLAB and branch != \"stable\":\n",
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" !pip install --quiet --upgrade jsonschema\n",
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" !pip install --quiet git+https://github.com/yoseflab/scvi-tools@$branch#egg=scvi-tools[tutorials]"
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"install()"
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]
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‎cell2location_lymph_node_spatial_tutorial.ipynb‎

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‎cellassign_tutorial.ipynb‎

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"outputs": [],
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"source": [
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"import sys\n",
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"\n",
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"#if branch is stable, will install via pypi, else will install from source\n",
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"branch = \"stable\"\n",
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"IN_COLAB = \"google.colab\" in sys.modules\n",
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"\n",
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"if IN_COLAB and branch == \"stable\":\n",
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" !pip install --quiet scvi-tools[tutorials]\n",
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"elif IN_COLAB and branch != \"stable\":\n",
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" !pip install --quiet --upgrade jsonschema\n",
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" !pip install --quiet git+https://github.com/yoseflab/scvi-tools@$branch#egg=scvi-tools[tutorials]"
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"install()"
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]
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‎cite_scrna_integration_w_totalVI.ipynb‎

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},
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"outputs": [],
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"source": [
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"%%capture\n",
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"import sys\n",
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"\n",
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"#if branch is stable, will install via pypi, else will install from source\n",
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"branch = \"stable\"\n",
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"IN_COLAB = \"google.colab\" in sys.modules\n",
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"\n",
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"if IN_COLAB and branch == \"stable\":\n",
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" !pip install --quiet scvi-tools[tutorials]\n",
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"elif IN_COLAB and branch != \"stable\":\n",
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" !pip install --quiet --upgrade jsonschema\n",
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" !pip install --quiet git+https://github.com/yoseflab/scvi-tools@$branch#egg=scvi-tools[tutorials]"
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"install()"
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]
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},
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{

‎data_loading.ipynb‎

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"outputs": [],
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"source": [
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"import sys\n",
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"\n",
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"#if branch is stable, will install via pypi, else will install from source\n",
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"branch = \"stable\"\n",
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"IN_COLAB = \"google.colab\" in sys.modules\n",
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"\n",
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"if IN_COLAB and branch == \"stable\":\n",
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" !pip install --quiet scvi-tools[tutorials]\n",
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"elif IN_COLAB and branch != \"stable\":\n",
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" !pip install --quiet --upgrade jsonschema\n",
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" !pip install --quiet git+https://github.com/yoseflab/scvi-tools@$branch#egg=scvi-tools[tutorials]"
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"!pip install --quiet scvi-colab\n",
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"from scvi_colab import install\n",
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"install()"
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]
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},
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{

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