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  • Installation Requirements
  • Install the DRAGEN ORA Helper Suite Software
  • Install the DRAGEN ORA Decompression References
  • Extract a specific reference
  • Extract the full database

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  1. Product Guides
  2. DRAGEN ORA Helper Suite v2.0

Installation Software and References

PreviousRemote and Local UsageNextCommands for the ORA Helper Suite software

Last updated 11 months ago

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The following information provides the requirements and steps to install the DRAGEN ORA Helper Suite Software.

Installation Requirements

The following table lists the minimum requirements for the DRAGEN ORA Helper Suite Software.

Component
Minimum Requirement

System memory

8 GB RAM

Free disk space

Compatible Linux distributions

  • CentOS 7 or later

  • Ubuntu 14 or later

  • Oracle 8 or later

Internet connection

An internet connection is required to install the DRAGEN ORA Helper Suite. Once installed, the internet connection is not required unless the DRAGEN ORA Helper Suite is used in a remote environment.

Info The oraFuse software uses a FUSE file system. Because the FUSE file system requires root privileges, the oraFuse software requires root privileges during installation.

Install the DRAGEN ORA Helper Suite Software

Download the installer from the , and follow the installation steps below to install the DRAGEN ORA Helper Suite Software. Installation Steps:

1. Open a terminal window.

2. If the installation is for an online system, then move the installer to the directory where the software should be installed. If the installation is for an offline system, then the installer does not need to be moved.

3. Navigate to the installer location.

4. Run the following command:

sh <file name>.sh

5. To install oraFuse, install the dependencies when prompted. The following dependencies will automatically be installed on an online system:

Distribution
Dependencies

CentOS

  • fuse

  • fuse-libs

  • libcurl

  • openssl

Ubuntu

  • fuse

  • openssl

  • libcurl3-gnutls

Oracle

  • fuse

  • fuse-libs

  • fuse-devel

  • libcurl

Info If the installation is for an offline system, then make sure the dependencies are installed on the offline system.

The installer creates a folder named oraHelperSuite. If the installation is for an offline system, then move the oraHelperSuite folder to the offline system. The oraHelperSuite folder contains the following:

  • orad executable

  • oraFuse executable

  • ora-ldpreload.so library

  • oraHelper wrapper executable

Install the DRAGEN ORA Decompression References

Info For default human reference, there is no need to add this extra step. The default human reference is already included in the DRAGEN ORA Decompression Software.

Extract a specific reference

1. Move the downloaded archive to the oraHelperSuite directory

mv yourdownloadpath/<genus_specificname>.tar.gz yourpath/oraHelperSuite

2. Navigate to the oraHelperSuite directory

cd yourpath/oraHelperSuite

3. Extract the archive file using the following command:

tar -xzvf <genus_specificname>.tar.gz (Linux)
tar -xzvf <genus_specificname>.tar.gz (Mac)

When the extraction of the specific reference is completed the oraHelperSuite folder on a linux environment should be structured as follows with example on gallus_gallus reference:

oraHelperSuite   |__orad   |__orafuse   |__ora-ldpreload.so   |__oraHelper   |__refbin   |__Gallus_gallus        |__refbin        |__readme_gallus_gallus

Extract the full database

1. Move the downloaded archive to the oraHelperSuite directory

mv yourdownloadpath/oradata.tar.gz yourpath/oraHelperSuite

2. Navigate to the the oraHelperSuite directory

cd yourpath/oraHelperSuite

3. Extract the archive file using the following command:

tar -xzvf oradata.tar.gz (Linux)
tar -xzvf oradata.tar.gz (Mac)

When the extraction of the full database is completed the the oraHelperSuite folder on a linux environment should be structured as follows:

oraHelperSuite   |__orad   |__orafuse   |__ora-ldpreload.so   |__oraHelper   |__refbin   |__oradata     |__Homo_sapiens       |__refbin       |__readme_homo_sapiens     |__Homo_sapiens_bisulfite       |__refbin       |__readme_homo_sapiens_bisulfite     |__Genus_specificname       |__refbin        |__readme_Genus_specificname

From 2 GB to 15 GB depending on how many different specific references are needed for the decompression. Specific references are available for downloads in the . For human data, 2 GB are required. The default human reference is already pre-installed within the Software and does not need to be downloaded.

the human reference genome used to decompress: refbin. The pre-installed refbin is the default human reference. If the FASTQ.ORA file has been compressed with a different reference ensure the correct reference is available locally or download it from the .

For decompression of FATSQ.ORA derived from specific species/models, the specific reference needs to be downloaded from the . The whole reference database can also be downloaded.

ORA Support Site
ORA Support Site
ORA Support Site
ORA Support Site