INNER CODE UNIT · Python

nmwrea

franciscozorrilla/metaGEM · workflow/metaGEM.sh:224

nmwrea=$(ls -d reassembled_bins/*|wc -l)
echo "Bin reassembly: $nmwrea / $nsamp samples processed ... "

#taxonomy: count subfolders
ntax=$(ls -d GTDBTk/*|wc -l)
echo "Taxonomy: $ntax / $nsamp samples processed ... "
    
#abundances: count subfolders
nabund=$(ls -d abundance/*|wc -l)
echo "Abundance: $nabund / $nsamp samples processed ... "
    
#models: count subfolders for sample progress and count .xml GEM files for total models generated
ngems=$(find GEMs -name "*xml"|wc -l)
ngemsamp=$(ls -d GEMs/*|wc -l)
echo "GEMs: $ngems models generated from $ngemsamp samples ... "
    
#model reports: count subfolders
nmemo=$(find memote -name "*.gz"|wc -l)

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