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Alokito
2019-09-04 15:45:20 -04:00
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parent 20706059b6
commit af9c91b5e8
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@@ -9,23 +9,26 @@ Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zu
python --version python --version
1. Set up a venv with 1. Set up a venv with
```
python -m venv .cellxgene-gateway python -m venv .cellxgene-gateway
source .cellxgene-gateway/bin/activate source .cellxgene-gateway/bin/activate
```
2. Install requirements with 2. Install requirements with
```
pip install -r requirements.txt pip install -r requirements.txt
```
3. Prepare a folder with .h5ad files, for example 3. Prepare a folder with .h5ad files, for example
```
mkdir cellxgene_data mkdir cellxgene_data
wget https://github.com/chanzuckerberg/cellxgene/raw/master/example-dataset/pbmc3k.h5ad -O ../cellxgene_data/pbmc3k.h5ad wget https://github.com/chanzuckerberg/cellxgene/raw/master/example-dataset/pbmc3k.h5ad -O ../cellxgene_data/pbmc3k.h5ad
```
4. Copy run.sh.example to run.sh: 4. Copy run.sh.example to run.sh:
```
cp run.sh.example run.sh cp run.sh.example run.sh
```
`run.sh` defines various environment variables: `run.sh` defines various environment variables:
* DEPLOYMENT_ENV - expects 'dev', 'tst' or 'prd' * DEPLOYMENT_ENV - expects 'dev', 'tst' or 'prd'