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.snakemake/scripts folder is empty #80
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Could you please provide an already to use example to run for testing with a fully filled yaml template example? It would be very helpful. I'm having the following issue. It's weird because I'm pretty sure that the fastq.gz files are there but the message say they aren't. I even use the full path.
This is the whole config.yaml file.
Again a complete example would be great, maybe with a tiny number of fastq sequences to be able to run easily. Thanks for the tool ;). |
Hello @caramirezal |
Hi, I'm having the same issue as @caramirezal I extracted the pipeline from the 0.4 tar.gz archive. Any suggestions? Thanks! |
The pipeline does not seem to create the tmp files of the scripts within the batch/.snakemake/scripts directory. Which results in the crash of the following command:
source /home/mye/miniconda2/bin/activate '/data/sag/2019/MYE_18020068_2019_SingleCellTomBras/dropSeqPipe/batch1/.snakemake/conda/f854f536'; set -euo pipefail; Rscript --vanilla /data/sag/2019/MYE_18020068_2019_SingleCellTomBras/dropSeqPipe/batch1/.snakemake/scripts/tmp5wipn0w_.plot_violine.R'
With error:
Fatal error: cannot open file '/data/sag/2019/MYE_18020068_2019_SingleCellTomBras/dropSeqPipe/batch1/.snakemake/scripts/tmp5wipn0w_.plot_violine.R': No such file or directory
Is something going wrong with rights or directories? Any clues would be greatly appreciated.
config.yaml:
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