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Uploading read files

Read data files can be uploaded to your private drop using FTP or Aspera protocols:

Use Webin Data Uploader 

> Webin Data Uploader

Please note the Webing Data Uploader requires Java JRE 6.

  1. Launch the Webin Data Uploader
  2. Please accept to download the *.jnlp file on your computer
  3. Launch the *.jnlp file
  4. If a popup window shows up, please confirm that you want to run the application.
  5. Enter your submission account name and password.
  6. Browse into the directory containing the data files you want to upload. The list of all the files contained in the selected directory will be displayed.
  7. Choose 'Override Existing Files' option if you want to replace any existing files.
  8. Choose 'Upload Directory Tree' option if you want to create a directory in your drop box with the same name as the directory containing your data files. Otherwise the files will be uploaded in the root directory of your drop box.
  9. Select the files you want to upload. You can use the 'Select All' button to select all the files for upload.
  10. Click on the 'Upload' button.

Use FTP like a file folder in Windows XP

  1. Open or navigate to 'My Network Places'
  2. Click 'Add a network place'
  3. 'Add Network Place Wizard' should appear
  4. Hit 'Next'
  5. Select 'Choose another network location/Specify the address of a Web site, network location, or FTP site.' and hit 'Next'
  6. Enter 'ftp://ftp.sra.ebi.ac.uk/' and hit 'Next'
  7. Uncheck 'Log on anonymously' and enter your login (era-drop-N)
  8. Enter a name for this connection and hit 'Next'
  9. Hit 'Finish'
  10. A new window should pop up and a password dialog will appear. Enter your password and start using your drop box similar to a local folder.

Use FTP command line client in Windows XP

  1. Start the command line interpreter: press Win-R, type cmd, hit enter
  2. Enter 'ftp ftp.sra.ebi.ac.uk'
  3. Enter your login
  4. Enter your password
  5. To see a list of available ftp commands type 'help'.
  6. Type 'ls' command to check the content of your drop box.
  7. Type 'prompt' to switch off confirmation for each file uploaded.
  8. Use 'mput' command to upload files: 'mput *.srf'
  9. Use 'bye' command to exit the ftp client.
  10. Use 'exit' command to exit the command line interpreter.

Use FTP command line client in Linux/Unix

  1. Open a terminal and type 'ftp ftp.sra.ebi.ac.uk'
  2. Enter your login
  3. Enter your password
  4. To see a list of available ftp commands type 'help'.
  5. Type 'ls' command to check the content of your drop box.
  6. Type 'prompt' to switch off confirmation for each file uploaded.
  7. Use 'mput' command to upload files: 'mput *.srf'
  8. Use 'bye' command to exit the ftp client.

Use Aspera ascp command line program

Aspera is a commercial file transfer protocol that provides better transfer speeds than ftp over long distances. For short distance file transfers we continue to recommend the use of ftp.

Aspera ascp command line client can be dowloaded here. Please select the correct operating system. The ascp command line client is distributed as part of the aspera connect high-performance transfer browser plug-in.

Your command should look similar to this:

ascp -QT -l300M -L- <file to upload> <era-drop-N>@fasp.sra.ebi.ac.uk:/.

The '-l300M' option sets the upload speed limit to 30MB/s. You may wish to lower this value to increase the reliability of the transfer.

The '-L-' option is for printing logs out while transferring,

The <files to upload> can be a file mask (e.g. '/homes/submitter/*.srf) or a list of files.

The <era-drop-N> is you password protected Aspera login.

Use FileZilla FTP client

  1. Download and install FileZilla or [another similar tool] (or if you are not administrator of your computer, download the portable version of FileZilla)
  2. Host: ftp.sra.ebi.ac.uk
  3. Username: Use the drop box name we sent to you by email earlier
  4. Password: Use the password we sent to you by email earlier
  5. Click 'Quickconnect'
  6. Search for the file(s) you want to upload using the tree on the left panel.
  7. Create directories in your drop box (if necessary) using the tree on the right panel.
  8. Drag and drop the files you want to upload from the lower left panel to the lower right panel.
  9. Once your transfer is successful, close the application.