Illumina Solexa Sequencing Data Access

by Kevin Teague — last modified Nov 08, 2007 08:40 AM

How to retrieve your Illumina Solexa Sequencing data.

When the sequencing and post-processing of your Illumina Solexa Sequencing statement of work is complete, we make the data available to you protected under a username and password on our FTP server. We will email you with this username and password when the data is available, and the path to location of your data files on our FTP server. The data will only remain on the server for 2 weeks, so it is important to retrieve your data from our server in a timely manner.

FTP Programs

Our FTP server is located at ftp://ftp03.bcgsc.ca/. We recommend the following FTP programs to access your data:

Windows

There are lots of FTP clients available on Windows. You may wish to try WS-FTP.

Mac OS X

You can use Cyberduck as a freely available FTP program. Use the Open Connection button and then your connection screen should look like this:

Note that on the Mac Fugu is a popular and robust SFTP client, but this does not currently work with our server as we are not running SFTP.

Linux

Linux (and Mac OS X users) can use command-line FTP clients. Generally a command-line FTP session with our servers will look like this:

$ cd ~/my-downloads-directory
$ ftp ftp03.bcgsc.ca
Connected to ftp03.bcgsc.ca.
220 ProFTPD 1.3.0 Server (Canada's Michael Smith Genome Sciences Centre) [10.9.208.95]
Name (ftp03.bcgsc.ca:<your-gsc-username>): <your-gsc-username>
331 Password required for <your-gsc-username>.
Password:
230 User <your-gsc-username> logged in.
Remote system type is UNIX.
Using binary mode to transfer files.
ftp> cd sbsdata/34
250 CWD command successful
ftp> dir
229 Entering Extended Passive Mode (|||2678|)
150 Opening ASCII mode data connection for file list
drwxrwxr-x   2 (?)      (?)          4096 Oct 17 05:57 FC0000
drwxrwxr-x   2 (?)      (?)          4096 Oct 17 05:56 FC0001
drwxrwxr-x   2 (?)      (?)          4096 Oct 17 05:56 FC0002
-rw-rwxr--   1 (?)      users        1578 Oct 16 22:19 eland_readme.doc
-rw-rwxr--   1 (?)      users        1071 Oct 16 22:19 quality_prb.doc
-rw-rwxr--   1 (?)      users        1333 Oct 16 22:19 realign_readme.doc
-rw-rwxr--   1 (?)      users         280 Oct 16 22:19 seq.txt_readme.doc
ftp> mget .

Once this is done, you will have downloaded all your current available Illumina Solexa Sequencing data to your current working directory.

Help

If you are still having problems accessing your data please email your current Solexa service contact person.

Page last modified Nov 08, 2007

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