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Hi, I tried today to start a run with the MAG version 3.2.1 but I can an error which is unexpected.
this is the error:
WARN: Access to undefined parameter `genome` -- Initialise it to a default value eg. `params.genome = some_value`
WARN: Access to undefined parameter `host_genomes` -- Initialise it to a default value eg. `params.host_genomes = some_value`
ERROR ~ Cannot invoke method keySet() on null object
-- Check script '/cluster/home/thhaverk/.nextflow/assets/nf-core/mag/./subworkflows/local/utils_nfcore_mag_pipeline/main.nf' at line: 353 or see '.nextflow.log' file for more details
Hi, I tried today to start a run with the MAG version 3.2.1 but I can an error which is unexpected.
this is the error:
My command is
my params.json file is
I do not see how this error happens. I tried it as well with version 3.2.0. same error.
I can start my pipeline with version 3.1.0, than the error does not occure.
So why does it not use the indicated "host_genome" from my json file?
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