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#! /bin/sh
## Inits
alifmt='CLUSTAL FASTA MSF NEXUS PHYLIPI PHYLIPS STOCKHOLM'
## Check sequences names with spaces
sed 's/\./ /' $srcdir/align/phylips.seq >_tmpali.seq
for f in $alifmt; do
../src/squizz -c $f _tmpali.seq >_tmpali2.seq 2>/dev/null || exit 1
(../src/squizz _tmpali2.seq 2>&1 | grep -v $f) && exit 1
done
## Check for unexpected sequence name
sed -e '$d' $srcdir/align/clustal.seq | sed -e '$d' >_tmpali.seq
tail -n 2 $srcdir/align/clustal.seq | sed 's/_/-/' >>_tmpali.seq
(../src/squizz -A _tmpali.seq 2>&1 | grep -v UNKNOWN) && exit 1
## Check for duplicate sequence name
cat $srcdir/align/fasta.seq $srcdir/align/fasta.seq >_tmpali.seq
(../src/squizz -A _tmpali.seq 2>&1 | grep -v UNKNOWN) && exit 1
## Cleanup
rm -f _tmpali*.seq
exit 0
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