vSNP

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Is step1 complete? got message: "reading *_unaligned_R2.fastq not such file or directory"

4

Hello, I've run vSNP step 1, and the program stopped after outputting this message "reading *_unaligned_R2.fastq not such file or directory". Why does this happens? Has the step1 finished correctly...

bmunozsa

The annotation issue is being cause by this join notation being used in the gbks. For example the line: complement(join(4727880..4728107,1..738)) Annotation works if the join is removed. Making the above:...

stuber

`vsnp_fasta_gbk_gff_by_acc.py -b -a ` downloads the genbank short version and not the long version. The long version is needed by vSNP_step2.py to annotate tables. Manually downloading the long version from...

stuber