Jpred News

30 September 2008

• Jpred 3 is back up after a successful migration. Jpred should be working as before, only faster. Please report any problems

22 September 2008

• UPDATE: The Jpred migration will happen between 26th and 30th September, inclusive. During this period Jpred should be considered unavailable even if the site appears to be working. There will be no change in functionality, but it will have access to a much larger cluster thereby increasing throughput.

09 September 2008

• We will soon be making a significant migration of the Jpred service to a new server. During this time the server will be unavailable and any stored results should be considered lost. It is likely to take several days to complete the migration and perform tests to ensure consistency of service. More information will be posted nearer the time.

04 August 2008

• In order to allow interactive jobs to run more promptly, batch jobs are now run at a lower priority. This is unlikely to make a big difference in the time it takes to run batch jobs, but interactive jobs will spend less time waiting to run.

5 June 2008

• Yesterday (04 June 2008) we had a disk failure which caused an instability in our filesystem for Jpred jobs. As such some (not all) files written will have been corrupted. Unfortunately, it is difficult to tell exactly which, therefore it is recommended that any jobs run on 4th June be re-run as a precaution. Sorry for the inconvenience.

8 May 2008

• A paper describing Jpred 3 has been published in Nucleic Acids Research Advanced Access

15 April 2008

• Jpred was down briefly today due to the server running out of disk space. Some jobs over-night also failed because of this. The issue has been resolved and normal service has been resumed.
• In addition, over the last couple of weeks, a few jobs have failed. It seems to have been caused by failures in writing temporary files, but it was difficult to reproduce. We have implemented a fix and will be monitoring the situation.

2 April 2008

• Alignments and single sequences are now accepted in Fasta format. The 'Advanced' page has been modified to accommodate this change.
• The prediction and alignment ouputs are now available in Fasta format as well. See the .concise.fasta file in the raw output.
• An odd bug where uploaded single files which had hits to the PDB failing to 'continue' has been fixed.

23 January 2008

• MSF/BLC alignment inputs can now have lower-case residue codes in their sequences.

18 January 2008

• Update The problem has been fixed and everything should be back to normal.
• We are currently having problems with sending emails. The feature has been disabled until it is resolved. Interactive jobs are working as normal.

7 January 2008

• Jpred 2 (the old version) had an unexpected server problem on New Year's eve, which meant that no Jpred (2 or 3) jobs were run until the 2nd January. The issue has been resolved, but means that Jpred 2 will be switched off sooner rather than later.

18 December 2007

• Jpred 3 is now the default version and fully functioning!
• Now with added batch job goodness

10 December 2007

• Jobs which 'Timeout' now correctly inform the user of the fact on the 'Results' page and by email (if provided).

21 September 2007

• Adding new functionality to the Jalview applet to be able to run full the application. See under the 'File' menu in the applet.
• The links to PDBsum on the 'Matches to PDB' page now open in a new window.
• An obscure bug in the rendering of PS/PDF outputs has been fixed.

21 August 2007

• The Jpred server was down this morning for a few hours due to unscheduled downtime of the servers.

09 August 2007

• Jpred server version 3 is released as a beta to run in parallel with version 2. Many improvements and bug-fixes have been implemented.

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