diff --git a/Readme.md b/Readme.md index 08dd79f..9cb4179 100644 --- a/Readme.md +++ b/Readme.md @@ -19,13 +19,13 @@ python -m venv .cellxgene-gateway source .cellxgene-gateway/bin/activate ``` -1. Install requirements with +2. Install requirements with ```bash pip install -r requirements.txt ``` -1. Install the gateway: +3. Install the gateway: _To install in development mode:_ @@ -45,14 +45,14 @@ _To install from PyPI:_ # NOT YET DONE, COMING! STAY TUNED ``` -1. Prepare a folder with .h5ad files, for example +4. Prepare a folder with .h5ad files, for example ```bash mkdir ../cellxgene_data wget https://github.com/chanzuckerberg/cellxgene/raw/master/example-dataset/pbmc3k.h5ad -O ../cellxgene_data/pbmc3k.h5ad ``` -1. Set your environment variables correctly: +5. Set your environment variables correctly: ```bash export CELLXGENE_LOCATION=`which cellxgene` @@ -62,7 +62,7 @@ export GATEWAY_PROTOCOL=http export GATEWAY_IP=127.0.0.1 ``` -1. Now, execute the cellxgene gateway: +6. Now, execute the cellxgene gateway: ```bash cellxgene-gateway @@ -79,7 +79,6 @@ Here's what the environment variables mean: The defaults should be fine if you set up a venv and cellxgene_data folder as above. - # Customization The current paradigm for customization is to modify files during a build or deployment phase: