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NAL-i5K / NAL_RNA_seq_annotation_pipeline

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new test files for travis #39

Closed mpoelchau closed 4 years ago

mpoelchau commented 4 years ago

genome file: https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/146/045/GCF_000146045.2_R64/GCF_000146045.2_R64_genomic.fna.gz

taxid: 559292

I'd recommend only using run SRR1980743. I'm not sure what the best way is to specify this - create an example .tsv file that travis uses for testing RNAseq_annotate.py, no matter what download_sra_metadata.py downloads?

HsiuKangHuang commented 4 years ago

Hi Monica, I download 559292.tsv but I didn't find the run SRR1980743 in tsv file. Therefore, I use SRR1980748 instead.

mpoelchau commented 4 years ago

Weird, not sure why it doesn't show up. I picked it because it is small (69.8Mb). SRR1980748 is 1.9Gb - is there a smaller example in your .tsv file?

mpoelchau commented 4 years ago

Fixed, new example file in docker container setup, closing.