Switch from awk to gawk

Former-commit-id: 70b104ab89d4c90a35925dbbcacdafaf6c1f2836
Former-commit-id: bf29abf66345cbc0ca81461064dcca63dfd4c15c
This commit is contained in:
2015-11-08 19:33:00 +01:00
parent 6fa63daf3f
commit 2261fa1c48
16 changed files with 52 additions and 49 deletions

View File

@ -33,13 +33,13 @@ pushTmpDir ORG.rrna
RRNA=$(basename ${QUERY})
hmmsearch --max ${RRNADB} ${QUERY} | \
awk '/Query: / { \
$AwkCmd '/Query: / { \
profil=$2; \
match($3,"[0-9][0-9]*");\
lprof=substr($3,RSTART,RLENGTH)} \
/ [0-9][0-9]* ! / { \
print profil,lprof,$7,$8,$10,$11}' | \
awk '($3 <=5) && (($2-$4) <=5) { \
$AwkCmd '($3 <=5) && (($2-$4) <=5) { \
full=1;$5=$5-$3+1;$6=$6+($2-$4)}
{loc=$5".."$6} \
($1 ~ /_RC$/) { \