On Nov 11, 2011, at 10:01 AM, Andrew South wrote:
Thanks Nate, hope it's a quick fix. Best wishes, Andy
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
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Nate Coraor <nate@bx.psu.edu> 11/11/2011 14:55 >>> On Nov 11, 2011, at 9:21 AM, Andrew South wrote:
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.
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
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
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The University of Dundee is a registered Scottish charity, No: SC015096
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
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The University of Dundee is a registered Scottish charity, No: SC015096
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?
Nate Coraor <nate@bx.psu.edu> 11/11/2011 17:16 >>> On Nov 11, 2011, at 10:01 AM, Andrew South wrote:
Thanks Nate, hope it's a quick fix. Best wishes, Andy
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
************************************************************ Please consider the environment. Do you really need to print this email?
Nate Coraor <nate@bx.psu.edu> 11/11/2011 14:55 >>> On Nov 11, 2011, at 9:21 AM, Andrew South wrote:
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.
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
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
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
The University of Dundee is a registered Scottish charity, No: SC015096
The University of Dundee is a registered Scottish charity, No: SC015096
On Nov 12, 2011, at 6:30 AM, Andrew South wrote:
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.
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
Thanks in advance,
Andy
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Nate Coraor <nate@bx.psu.edu> 11/11/2011 17:16 >>> On Nov 11, 2011, at 10:01 AM, Andrew South wrote:
Thanks Nate, hope it's a quick fix. Best wishes, Andy
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
************************************************************ Please consider the environment. Do you really need to print this email?
Nate Coraor <nate@bx.psu.edu> 11/11/2011 14:55 >>> On Nov 11, 2011, at 9:21 AM, Andrew South wrote:
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.
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
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
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
The University of Dundee is a registered Scottish charity, No: SC015096
The University of Dundee is a registered Scottish charity, No: SC015096
participants (2)
-
Andrew South
-
Nate Coraor