release 1.2.0

README.md

@@ -51,6 +51,8 @@ Options:
   -l MINLEN, --min-len=MINLEN
                         print BED feature only if its length is bigger (or equal
                         to) than MINLELN (default: 1)
+  -z MINCTG, --min-ctg-len=MINCTG
+                        skip reference sequences having size less or equal to MINCTG
   -d, --discard-invalid-alignments
                         skip duplicates, failed QC, and non primary alignment,
                         minq>0 (or user-defined if higher) (default: 0)

binaries/build_osx.sh

@@ -1,6 +1,7 @@
 #!/bin/bash
 if [ ! -d "$HOME/miniconda3" ]; then
 	echo "MINICONDA not found in $HOME/miniconda3"
+	echo "Install miniconda, then get bamtools from bioconda."
 	exit 1;
 fi
 if [ ! -e "$HOME/miniconda3/lib/libbamtools.a" ]; then

binaries/build_ubuntu.sh

@@ -1,5 +1,15 @@
 #!/bin/bash
 
+if [ ! -e "/usr/lib/x86_64-linux-gnu/libbamtools.a" ]; then
+	echo "Bamtools not found at: /usr/lib/x86_64-linux-gnu/libbamtools.a"
+	exit 1
+fi
+
+if [ ! -e "/usr/lib/gcc/x86_64-linux-gnu/5/libstdc++.a" ]; then
+	echo "Stdlib not found at: /usr/lib/gcc/x86_64-linux-gnu/5/libstdc++.a"
+	exit 1
+fi
+
 set -euxo pipefail
 SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" >/dev/null && pwd )"
 cd "$SCRIPT_DIR/.."