Download Geo Sra Data Using Aspera Connect
3
1
Entering edit mode
9.5 years ago
dfernan ▴ 710

I'd like to download the following SRA files:

ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByStudy/sra/SRP%2FSRP014%2FSRP014751

using aspera connect in our university linux cluster but when I try ascp'ing it asks me for a password, do you know if there is a guest password or I should write to the sra email sra@ncbi.nlm.nih.gov.

Also is there a way to recursively download all the files directly? I was ascp'ing them one by one, would the following command work?

ascp -QT -l640M anonftp@ftp-private.ncbi.nlm.nih.gov:/sra/sra-instant/reads/ByStudy/sra/SRP/SRP014/SRP014751/ ./test/

I looked at the http://www.ncbi.nlm.nih.gov/books/NBK47527/pdf/Aspera_Transfer_Gui.pdf but it did not explicity say anything about requiring a password.

Please let me know if anyone has some experience with using Aspera to download GEO data.

Thanks!

ncbi geo • 7.9k views
ADD COMMENT
0
Entering edit mode

Hi, have you solved this problem. I have added asperaweb_id_dsa.putty, but still need Key passphrase. Where could I get this Key passphrase? Thanks.

ADD REPLY
6
Entering edit mode
8.3 years ago
Ann ★ 2.3k

Following up on my previous comment:

I recently installed Aspera Connect on my Mac using this site: http://downloads.asperasoft.com/connect2/

The newer version of ascp requires using asperaweb_id_dsa.openssh instead of asperaweb_id_dsa.putty. This change happened within the last year or so. Some of the older documentation may be out of date.

Also, like Jeremy said, ascp -i requires the absolute path.

ADD COMMENT
2
Entering edit mode
9.5 years ago

ascp definitely wants that -i "/full_path_to/asperaweb_id_dsa.putty" argument

ADD COMMENT
0
Entering edit mode

@Jeremy thanks.

ADD REPLY
0
Entering edit mode

I have a similar problem. I tried giving it the full path but ascp still asked for a passphrase.

ADD REPLY
0
Entering edit mode

The same thing happens to me. Changing from .putty to .openssh still requires me to enter a passphrase.

ADD REPLY
1
Entering edit mode
8.3 years ago
baikalevi ▴ 10

Thanks Ann: This is very helpful, it worked absolutely fine by adding full path for -i and changing putty to openssh.

ADD COMMENT

Login before adding your answer.

Traffic: 1728 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6