Installing local copy of FILER

Requirements:
1. FILER requires at least 500 GB of disk space for each genome build.
2. BASH
3. Giggle
4. tabix
5. wget
6. md5sum

To create a local copy of FILER (or particular FILER data source) for use with
custom analysis pipelines, install_annot.sh script can be used.
This script will 1) download FILER tracks and re-create FILER directory structure under specified target directory and 2) index data using Giggle.

USAGE:
bash install_annot.sh <target_dir> <gadb_metadata_url|gadb_metadata_file>

For example, to install latest GRCh37/hg19 FILER tracks into FILER/ directory:

bash install_annot.sh FILER https://tf.lisanwanglab.org/GADB/metadata/gadb.latest.hg19.template

To install latest GRCh38/hg38 GADB annotation data:
bash install_annot.sh FILER https://tf.lisanwanglab.org/GADB/metadata/gadb.latest.hg38.template

NOTE: While GADB data can be stored in any directory with sufficient space
on the target machine/server (e.g., /mnt/data/FILER),
as *absolute paths* are used to create Giggle indexes,
the data should not be moved to another place after indexing,
otherwise Giggle re-indexing will be required.