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#!/bin/bash
IGNORE_TESTS=()
IGNORE_TESTS+=(chimera.bellerophon)
TEST_DIR=TestBatches
if [ "x$1" != "x" ] ; then
TEST_DIR=$1
fi
MOTHUR_EXEC=mothur
for TEST_FILE in `find $TEST_DIR -type f -name batch` ; do
PROCESS=True
for IGNORE_TEST in ${IGNORE_TESTS[@]}; do
if [ `echo $TEST_FILE | grep -v /$IGNORE_TEST/batch | wc -l` == 0 ] ; then
PROCESS=False
fi
done
if [ ${PROCESS} == 'True' ] ; then
echo "Processing $TEST_FILE"
./mothur "$TEST_FILE"
else
echo "Ignoring $TEST_FILE"
fi
done
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