Lastz

Question: Lastz

7.1 years ago by

Hello folks Anyone else having trouble with running Lastz to map? Jobs are being sent but not running. It stopped working for me two days ago after working perfectly, I've tried fiddling with the formats but no joy. Thanks, Andy Dr A P South Centre for Oncology and Molecular Medicine University of Dundee Ninewells Hospital & Medical School Dundee DD1 9SY Tel 01382 496432 Fax 01382 633952 a.p.south@dundee.ac.uk ************************************************************ Please consider the environment. Do you really need to print this email? The University of Dundee is a registered Scottish charity, No: SC015096

• 751 views

ADD COMMENT • link •

modified 7.1 years ago by Nate Coraor ♦ 3.2k • written 7.1 years ago by Andrew South • 50

7.1 years ago by

Nate Coraor ♦ 3.2k

United States

Nate Coraor ♦ 3.2k wrote:

Hi Andy, It looks like there's a problem with the cluster that runs our NGS jobs. I'm currently looking into it. Sorry for the inconvenience. --nate

ADD COMMENT • link written 7.1 years ago by Nate Coraor ♦ 3.2k

7.1 years ago by

Nate Coraor ♦ 3.2k

United States

Nate Coraor ♦ 3.2k wrote:

Hi Andy, All backlogged NGS jobs should now be running, new ones will likely queue until free slots are available. Please let us know if there's further trouble, and thanks for using Galaxy, --nate

ADD COMMENT • link written 7.1 years ago by Nate Coraor ♦ 3.2k

Dear Nate - It seems I may have upset the cluster again: I have 3 Lastz jobs running and cannot upload any more data. I had been uploading fine; started 3 lastz mapping jobs (Fasta (1 sequence) vs Fasta (~3000 sequences) output as SNP, when I realised I made a mistake, cancelled these jobs, uploaded the correct files and then ran the 3 comparisons (similar files) again and now these jobs have been running >1hr and I cannot upload any more data. Thanks in advance, Andy ************************************************************ Please consider the environment. Do you really need to print this email? Hi Andy, All backlogged NGS jobs should now be running, new ones will likely queue until free slots are available. Please let us know if there's further trouble, and thanks for using Galaxy, --nate The University of Dundee is a registered Scottish charity, No: SC015096

ADD REPLY • link written 7.1 years ago by Andrew South • 50

Hi Andy, What are the details related to being unable to upload? Are the datasets sitting in a certain state (uploading, queued, etc.)? Did you have any other jobs running at the time? There are some concurrent job limits that could have been responsible. --nate

ADD REPLY • link written 7.0 years ago by Nate Coraor ♦ 3.2k

Please log in to add an answer.

Similar posts • Search »