Question: Downloading data from HMPDACC.
0
gravatar for pmorellmi
5 months ago by
pmorellmi0
pmorellmi0 wrote:

Hi! I'm trying to download some data from the HMPDACC, but when I used hmp_client tool, most of my files were in a format not compatible with it (fasp). I've read that this format uses the Aspera Connect plugin, but I've been unable to download a single file. More interesting, is there a way to download those files in bulk from the manifest? My cart have more than a thousand files, so...

Thanks for the help.

microbiome metagenomics data • 222 views
ADD COMMENTlink modified 5 months ago • written 5 months ago by pmorellmi0

You may need credentials to download some of the data. If you are behind a firewall then using Aspera may need some adjustments from your IT-admins. Look into both.

ADD REPLYlink written 5 months ago by genomax49k

I have the Aspera Connect plugin installed, but I can't access the ascp command line tool to download the +1000 files. Any advise?

ADD REPLYlink written 5 months ago by pmorellmi0
1
gravatar for pmorellmi
5 months ago by
pmorellmi0
pmorellmi0 wrote:

Ok, I figured it out: In order to download a batch of files from the fasp server, you need to download the manifest file and use the manifest2ascp.py tool from the hmp_client (https://github.com/ihmpdcc/hmp_client). It will create a .sh file, that you should run in order to download all your files.

ADD COMMENTlink written 5 months ago by pmorellmi0
0
gravatar for Hussain Ather
5 months ago by
Hussain Ather860
National Institutes of Health, Bethesda, MD
Hussain Ather860 wrote:

Try using the Aspera client https://www.hmpdacc.org/hmp/resources/download.php

ADD COMMENTlink written 5 months ago by Hussain Ather860
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 994 users visited in the last hour