### Basic Usage

Source: https://github.com/medical-event-data-standard/mimic_iv_meds/blob/main/README.md

Install the package and set environment variables for PhysioNet credentials, then run the extraction command.

```bash
pip install MIMIC_IV_MEDS
export DATASET_DOWNLOAD_USERNAME=$PHYSIONET_USERNAME
export DATASET_DOWNLOAD_PASSWORD=$PHYSIONET_PASSWORD
MEDS_extract-MIMIC_IV root_output_dir=$ROOT_OUTPUT_DIR
```

--------------------------------

### Demo Run

Source: https://github.com/medical-event-data-standard/mimic_iv_meds/blob/main/README.md

Run the entire pipeline using the publicly available MIMIC-IV demo dataset.

```bash
MEDS_extract-MIMIC_IV root_output_dir=$ROOT_OUTPUT_DIR do_demo=True
```

--------------------------------

### Workaround for Symlink Issues

Source: https://github.com/medical-event-data-standard/mimic_iv_meds/blob/main/README.md

Enable file copying instead of symlinking to avoid FileNotFoundError or pipeline errors on Ubuntu.

```bash
MEDS_extract-MIMIC_IV root_output_dir=$ROOT_OUTPUT_DIR do_copy=True
```

--------------------------------

### Direct Directory Specification

Source: https://github.com/medical-event-data-standard/mimic_iv_meds/blob/main/README.md

Specify the input and output directories directly for the extraction process.

```bash
export DATASET_DOWNLOAD_USERNAME=$PHYSIONET_USERNAME
export DATASET_DOWNLOAD_PASSWORD=$PHYSIONET_PASSWORD
MEDS_extract-MIMIC_IV raw_input_dir=$RAW_INPUT_DIR pre_MEDS_dir=$PRE_MEDS_DIR MEDS_cohort_dir=$MEDS_COHORT_DIR
```

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