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nanoporetech / pinfish

Tools to annotate genomes using long read transcriptomics data
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error loading or unzipping Reference Data #6

Closed AndrewWT closed 5 years ago

AndrewWT commented 5 years ago

Hello, I am getting the error below when I execute snakemake. I have followed the tutorial instructions here: https://community.nanoporetech.com/knowledge/bioinformatics/using-pinfish-for-gene-tra/tutorial

I build the proper environment and get the tutorial to run but when I use my own data in the RawData and ReferenceData folders after updating the config.yaml file I am getting:

(Pinfish) -bash-4.2$ snakemake -j 1 Building DAG of jobs... InputFunctionException in line 73 of /mnt/home/thom1524/Pinfish/Snakefile: KeyError: 'AMC_annotation.gff.gz' Wildcards: unzipFile=AMC_annotation.gff.gz

It seems to me that the data I give it are not being opened or read. Any help would be much appreciated!

bsipos commented 5 years ago

Hello,

This is not a pinfish issue. Please submit an issue to the tutorial repository.

Botond