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mazzalab / fastqwiper

An ensemble method to recover corrupted FASTQ files, drop or fix pesky lines, remove unpaired reads, and settle reads interleaving.
GNU General Public License v3.0
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Error with Docker file #8

Closed kimal999 closed 1 year ago

kimal999 commented 1 year ago

Hi,

I have below error with the Docker image. I'm running it via "singularity" with below command.

singularity run fastqwiper.sif paired 4 sample 50000000 -v 'YOUR_LOCAL_PATH_TO_DATA_FOLDER:/fastqwiper/data'

Error message

Processing paired-end files Error: Snakefile "pipeline/fix_wipe_pairs_reads.smk" not found. Is this a problem due to my command?

mazzalab commented 1 year ago

Hi, we currently do not distribute FastqWiper as a Singularity container and haven't tested the Docker-to-Singularity conversion process. It is - however - one of our milestones to do that. In the meantime, we recommend you to use our Docker image, that should work properly.

kimal999 commented 1 year ago

Hi, Thank you for your prompt response. I'll check and let you know if there is any issue.