Fix travis build. Upd runner script

Author: mikessh

.travis.yml

@@ -5,7 +5,7 @@ jdk: oraclejdk8
 install:
   - git clone https://github.com/mikessh/vdjtools.git
   - cd vdjtools/
-  - git checkout tags/1.1.2-SNAPSHOT
+  - git checkout tags/1.1.3
   - mvn clean install -q -Dmaven.test.skip=true
   - cd ..
 

LICENSE

@@ -188,7 +188,7 @@ VDJdb: A software for functional annotation of immune repertoires
       same "printed page" as the copyright notice for easier
       identification within third-party archives.
 
-   Copyright 2015 Mikhail Shugay
+   Copyright 2015-2017 Mikhail Shugay
 
    Licensed under the Apache License, Version 2.0 (the "License");
    you may not use this file except in compliance with the License.

build.gradle

@@ -40,7 +40,7 @@ dependencies {
     compile 'org.codehaus.gpars:gpars:1.0.0'
     compile 'junit:junit:4.12'
     compile 'com.milaboratory:milib:1.0'
-    compile 'com.antigenomics:vdjtools:1.1.2'
+    compile 'com.antigenomics:vdjtools:1.1.3'
     compile 'com.fasterxml.jackson.core:jackson-core:2.7.1'
     compile 'org.apache.ant:ant:1.9.4'
 }

vdjdb

@@ -48,7 +48,7 @@ case $os in
         dir=$(dirname "$(readlinkUniversal "$0")")
     ;;
     Linux)
-        rFreeMb=$(free -m | head -n 3 | tail -n 1 | awk '{ print $4 }')
+        rFreeMb=$(free -m | grep Mem | awk '{ print $4 }')
         maxMb=$(($rFreeMb-$delta))
         dir="$(dirname "$(readlink -f "$0")")"
     ;;
@@ -116,7 +116,7 @@ jar=""
 
 if [[ -z "$otherJar" ]];
 then
-    for j in "$dir/../jar/vdjdb.jar" "$dir/vdjdb.jar" $(ls -d -1 $dir/target/* 2> /dev/null | grep distribution.jar)
+    for j in "$dir/../jar/vdjdb-1.1.5.jar" "$dir/vdjdb-1.1.5.jar" $(ls -d -1 $dir/target/* 2> /dev/null | grep distribution.jar)
     do
         if [[ -e "$j" ]];
         then