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Added instructions to update cluster related options when changing ex…
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SvitlanaLukicheva authored Jul 19, 2023
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## Q: MINI-EX failed, what should I do now?
A:
* Check the [config file](/docs/configuration.md):
* Did you specify the correct [executor](https://www.nextflow.io/docs/latest/executor.html) (e.g. SGE, SLURM, ...)?
* Did you specify the correct [executor](https://www.nextflow.io/docs/latest/executor.html) (e.g. SGE, SLURM, ...)? Cluster-related options (i.e., all the lines starting with `clusterOptions`) should also be adapted to match the options of the selected executor.
* Did you already substitute `<pe_name>` with the parallel environment name of your system (e.g. `serial`)? If needed, `-pe <pe_name> 5` can also be omitted. This will run the process "run_grnboost" without parallellization. Note that this will significantly increase the overall runtime.
* Check the Nextflow output to see which specific process failed. Try to increase the memory allocated to that process in the config file. For example, if the process "makeBorda" failed, change `-l h_vmem=10G` to `-l h_vmem=20G` for the makeBorda process in the config file.

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