Tophat2 Not Working?

Question: Tophat2 Not Working?

5.3 years ago by

Canada

Delong, Zhou • 140 wrote:

Hello, I've been trying tophat 2 on the public server since last week but I don't get any results. I got one empty output for " the output datasets were deleted while the job was running, the job was manually dequeued or there was a cluster error." one error with " Unable to queue job for execution. Resubmitting the job may succeed." and one empty output with no error message. It seems that tophat 2 is new on the server, has anyone run it with success yet? Thanks, Delong

rna-seq tophat • 1.1k views

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modified 5.3 years ago by Jennifer Hillman Jackson ♦ 25k • written 5.3 years ago by Delong, Zhou • 140

5.3 years ago by

Jennifer Hillman Jackson ♦ 25k

United States

Jennifer Hillman Jackson ♦ 25k wrote:

Hello Delong, There were a small number of recent cluster errors during a short window earlier and it sounds as if you ran into that problem. Our apologies for the confusion. When this occurs, please just re-submit the job, as this is the best solution. Empty output indicates an issue with parameters (no hits). This would not result in an error. Reevaluating these would be advised - links to the full tool documentation are on the tool form itself plus help reminders. Take care, Jen Galaxy team -- Jennifer Hillman-Jackson http://galaxyproject.org

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5.3 years ago by

Anto Praveen Rajkumar Rajamani • 80

Denmark

Anto Praveen Rajkumar Rajamani • 80 wrote:

Hi Delong, I used Tophat2 for 32 files and all worked well. I did not have any problem with it. Best wishes, Anto ________________________________ To: galaxy-user@bx.psu.edu Subject: [galaxy-user] Tophat2 not working? Hello, I've been trying tophat 2 on the public server since last week but I don't get any results. I got one empty output for " the output datasets were deleted while the job was running, the job was manually dequeued or there was a cluster error." one error with " Unable to queue job for execution. Resubmitting the job may succeed." and one empty output with no error message. It seems that tophat 2 is new on the server, has anyone run it with success yet? Thanks, Delong

ADD COMMENT • link written 5.3 years ago by Anto Praveen Rajkumar Rajamani • 80

Hi, Thanks for the feedback. Best, Delong ________________________________ De : Anto Praveen Rajkumar Rajamani [APR@hum-gen.au.dk] Envoyé : 29 aoűt 2013 14:27 Ŕ : Delong, Zhou; galaxy-user@bx.psu.edu Objet : RE: Tophat2 not working? Hi Delong, I used Tophat2 for 32 files and all worked well. I did not have any problem with it. Best wishes, Anto ________________________________ To: galaxy-user@bx.psu.edu Subject: [galaxy-user] Tophat2 not working? Hello, I've been trying tophat 2 on the public server since last week but I don't get any results. I got one empty output for " the output datasets were deleted while the job was running, the job was manually dequeued or there was a cluster error." one error with " Unable to queue job for execution. Resubmitting the job may succeed." and one empty output with no error message. It seems that tophat 2 is new on the server, has anyone run it with success yet? Thanks, Delong

ADD REPLY • link written 5.3 years ago by Delong, Zhou • 140

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