From a79b631975bdfaca107a76b12a51c47a3fa32ba0 Mon Sep 17 00:00:00 2001
From: jgugliel <julien.guglielmini@pasteur.fr>
Date: Mon, 13 Jun 2022 11:05:50 +0200
Subject: [PATCH] Slight log improvement
---
wGRR | 1 -
1 file changed, 1 deletion(-)
diff --git a/wGRR b/wGRR
index 185e8aa..0b57da6 100755
--- a/wGRR
+++ b/wGRR
@@ -236,7 +236,6 @@ duration=$SECONDS
if [[ -f $OUT.allpairs.txt ]] ; then
printf "%-10s -- %s %s%s\n" "[INFO]" "Using existing file" $OUT ".allpairs.txt" | tee -a ${OUT}.wgrr.log
else
- printf "%-10s -- %s\n" "[ELAPSED]" $(textifyDuration $duration) | tee -a ${OUT}.wgrr.log
printf "%-10s -- %s\n" "[INFO]" "Writing genomes pairs" | tee -a ${OUT}.wgrr.log
$AWKEXE 'BEGIN{x=1}/^>/{g=substr($1,2);gsub(/_[^_]+$/,"",g);if(FNR==1){a[x]=g;++x;currg=g;next}if(g!=currg){a[x]=g;x++;currg=g}}END{i=0;while(++i in a){j=i;while(++j in a){print a[i]"\t"a[j]}}}' $PRT > $OUT.allpairs.txt
printf "%-10s -- %s\n" "[INFO]" "$(wc -l $OUT.allpairs.txt | $AWKEXE '{print $1}') pairs written" | tee -a ${OUT}.wgrr.log
--
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