--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/preclassification-wrapper.sh	Thu Feb 26 18:16:36 2015 -0500
@@ -0,0 +1,30 @@
+#!/bin/bash
+
+source $(dirname $0)/util.sh
+source $1
+
+PLACED_SEQS=$(extify jplace ${PLACED_SEQS})
+NBC_SEQS=$(extify fasta ${NBC_SEQS})
+
+guppy redup \
+    -m \
+    -d ${DEDUP_INFO} \
+    -o ${REDUPED_SEQS} \
+    ${PLACED_SEQS}
+
+REDUPED_SEQS=$(extify jplace ${REDUPED_SEQS})
+
+rppr prep_db \
+    -c ${REFPKG} \
+    --sqlite ${CLASS_DB}
+
+guppy classify \
+    -c ${REFPKG} \
+    -j ${GALAXY_SLOTS:-4} \
+    --pp \
+    --sqlite ${CLASS_DB} \
+    --classifier hybrid2 \
+    --nbc-sequences ${NBC_SEQS} \
+    ${REDUPED_SEQS}
+
+multiclass_concat.py --dedup-info ${DEDUP_INFO} ${CLASS_DB}