Fix missing _2 schemes from database (Issue #20)

tseemann · Jun 7, 2016 · a6417cd · a6417cd
1 parent a74b570
commit a6417cd
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Showing 10 changed files with 307,152 additions and 273,304 deletions.
diff --git a/db/blast/mlst.fa b/db/blast/mlst.fa
diff --git a/db/blast/mlst.fa.nhd b/db/blast/mlst.fa.nhd
diff --git a/db/blast/mlst.fa.nhi b/db/blast/mlst.fa.nhi
diff --git a/db/blast/mlst.fa.nhr b/db/blast/mlst.fa.nhr
diff --git a/db/blast/mlst.fa.nin b/db/blast/mlst.fa.nin
diff --git a/db/blast/mlst.fa.nog b/db/blast/mlst.fa.nog
diff --git a/db/blast/mlst.fa.nsd b/db/blast/mlst.fa.nsd
diff --git a/db/blast/mlst.fa.nsi b/db/blast/mlst.fa.nsi
diff --git a/db/blast/mlst.fa.nsq b/db/blast/mlst.fa.nsq
diff --git a/scripts/mlst-make_blast_db b/scripts/mlst-make_blast_db
@@ -8,7 +8,8 @@ BLASTFILE="$BLASTDIR/mlst.fa"
 mkdir -p "$BLASTDIR"
 rm -f "$BLASTFILE"
 
-for N in $(find $MLSTDIR -maxdepth 1 | grep -v '_2$'); do
+#for N in $(find $MLSTDIR -maxdepth 1 | grep -v '_2$'); do
+for N in $(find $MLSTDIR -type d -maxdepth 1); do
   SCHEME=$(basename $N)
   echo "Adding: $SCHEME"
   cat "$MLSTDIR"/$SCHEME/*.tfa | sed -e "s/^>/>$SCHEME./" >> "$BLASTFILE"