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cerebis / meta-sweeper

Parametric sweep of simulated microbial communities and metagenomic sequencing.
GNU General Public License v3.0
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params.debug undefined #61

Closed koadman closed 7 years ago

koadman commented 7 years ago

The 3C and timeseries workflow use a variable called params.debug which is undefined. This causes nextflow to abort immediately. Adding:

params.debug=false

near the top of the workflow resolves the issue

cerebis commented 7 years ago

Meta-sweeper is only tested with Nextflow up to 0.19. I strongly suspect this is caused by changes within Nextflow, since previously the variable debug was set to false by default.

koadman commented 7 years ago

yes, on 0.22.5

cerebis commented 7 years ago

I've not reproduced this error yet, but we can move this declaration to nextflow.config.

cerebis commented 7 years ago

I've added this to ts-multi, if you can get a chance to test it in your environment.

cerebis commented 7 years ago

Master closes by 4f415d146d5e167fd28a078e7eb7f0432df4b0f0 Previously addressed on ts-multi