Question: Cufflink not running
gravatar for iraia.maialen
2.5 years ago by
iraia.maialen10 wrote:

I have tried to run the cufflinks tool once and again trying to select different options, but non of them work. Always I have the same error and I don't know what does it mean. This is the error: cufflinks v2.2.1 cufflinks -q --no-update-check -I 300000 -F 0.100000 -j 0.150000 -p 10 -G /jetstream/scratch0/main/jobs/13118130/inputs/dataset_8228101.dat -b /cvmfs/ /jetstream/scratch0/main/jobs/13118130/inputs/dataset_16050676.dat

Can someone help me?

Thanks in advance,


rna-seq cufflinks • 669 views
ADD COMMENTlink modified 2.5 years ago by Jennifer Hillman Jackson25k • written 2.5 years ago by iraia.maialen10

Hello Iraia, Please send in a bug report and we can help. Include the link to this post in the comments. Jen, Galaxy team

ADD REPLYlink written 2.5 years ago by Jennifer Hillman Jackson25k
gravatar for Jennifer Hillman Jackson
2.5 years ago by
United States
Jennifer Hillman Jackson25k wrote:


For any following, this job is on the edge of being too large to execute at Galaxy Main. However, often re-runs using Jetstream are successful. The exact error differs between clusters when the job does fail. If you run into this type of issue (a job that is sometimes too large to execute), try re-running on Jetstream as well (a few times) or work can be moved to a local or cloud Galaxy.

Section 2.8 of the Galaxy support wiki explains alternatives for working with data/jobs that exceed the compute resources at

Jen, Galaxy team

ADD COMMENTlink written 2.5 years ago by Jennifer Hillman Jackson25k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 170 users visited in the last hour