Guide to download data from NIRD

How to download the results from NIRD

You can download the results using either of the below options:

  • Click the link in the delivery email that you have received from us or copy - paste it into your preferred brower (we recommend latest firefox, chrome or safari).

When prompted for a username and password, use the credentials provided in the email.

  • You can use 'wget' from your terminal as shown below

wget --user=<username_from_email> --ask-password --accept "*.tar" --recursive --no-directories --no-parent <link_from_email>

Make sure to always include a trailing slash in link_from_email, e.g. https://...../Test-DNA1-2018-05-29/. Failing to do so can cause wget to fail. Enter the password from the email when prompted.

 

Extracting fastq (data) files

You can extract *.tar file by typing the following command in the terminal:

tar -xvf *.tar

A md5sum.txt file is included in the result folder. In the folder, you can check whether the files are downloaded completely by type the following command in the terminal:

md5sum -c md5sum.txt

If all the fastq.gz files are OK, you should see OK after each file name, e.g.:

.//Sample_A/A_CAGATC_L002_R1_001.fastq.gz: OK

 

Published Feb. 27, 2015 3:00 PM - Last modified May 29, 2018 9:50 AM