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xiezhq / ISEScan

A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
Apache License 2.0
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ISEScan #52

Closed vilasben closed 1 year ago

vilasben commented 1 year ago

I am using ISEScan for bacterial genome

I am getting error that predict and translate genes from genome sequence into protein database using FragGeneScan program

Begin to translate genome into proteome. /Users/oliverlab/vilas_data/pacbio23/NCBI/3492/ISEScan-1.7.2.3/miniconda3/yes/bin/FragGeneScan -s NC_012624.fna -o results/proteome/NC_012624.fna -w 0 -t illumina_5 -p 2 Using 2 threads. no. of seqs: 1 prepare gff file.. sh: awk: command not found

Similar error found in test and in our genome. Thank You Vilas

xiezhq commented 1 year ago

Hi Vilas,

The error message said there was no awk software on your computer. The awk is pre-installed on most of Linux computer. Did you run ISEScan on Linux computer?

Xie