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krokicki committed Oct 24, 2024
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4 changes: 2 additions & 2 deletions README.md
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To add extra metadata about the images, you can provide a CSV file with the `-i` flag:

```bash
bin/import.py -d /root/data/dir -c collection_name -i input.csv
./bin/import.py -d /root/data/dir -c collection_name -i input.csv
```

The CSV file's first column must be a relative path to the OME-Zarr image within the root data directory. The remaining columns can be any annotations that will be searched and displayed within the gallery, e.g.:
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To try an example, follow steps 1 and 2 above and use the following command to import the example data:

```bash
bin/import.py -d s3://janelia-data-examples/fly-efish -c flyefish -m docs/flyefish-example.csv
./bin/import.py -d s3://janelia-data-examples/fly-efish -c flyefish -m docs/flyefish-example.csv
```

Copy the example settings.yaml file to your working directory and start the server:
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2 changes: 1 addition & 1 deletion docs/DataImport.md
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You can import images into Zarrcade using the provided command line script:

```bash
bin/import.py -d /root/data/dir -c mycollection
./bin/import.py -d /root/data/dir -c mycollection
```

This will automatically create a local Sqlite database containing a Zarrcade **collection** named "mycollection" and populate it with information about the images in the specified directory. You can also add a label to the collection by setting the `--collection-label` parameter. This label will be displayed in the web UI when choosing the collection to view.
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