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emmesgit / RSEQREP

RNA-Seq Reports, an open-source cloud-enabled framework for reproducible RNA-Seq data processing, analysis, and result reporting
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Error in running run-analysis.sh : Error in { : task 1 failed - "argument is of length zero" Calls: %dopar% -> <Anonymous> Execution halted #4

Closed EorgeKit closed 1 year ago

EorgeKit commented 2 years ago

Hello rseqrep team, great job for developing such a useful tool So far I kept getting that error at some point when running the run-analysis.sh

My code is :

nohup bash analysis.sh --save-int-local-files -@ 10 -c /home/repuser/Desktop/RSEQREP-2.3.0/config/config-Day0,5-and-10.xlsx &> analysis.out &

My nohup file is : analysis.out.gz

My config file is : config-Day0,5-and-10.xlsx.gz

EorgeKit commented 2 years ago

I have been struglling with the previous two steps but I managed to deal with all errors but this one seems to get the best of me, could you please provide some assistance. Regards,George

EorgeKit commented 2 years ago

I managed to ping the problem being in:

Rscript 02-sdeg-identification/init-edgeR-glm-model.r

in the run-analysis.sh

EorgeKit commented 1 year ago

Managed to fix it, I came to figure out the parameter glm.model.paired was not defined in my analysis config sheet of the config file