From 7b9e1cc7fb5284ddc852bf5b7f9f79eb69e68961 Mon Sep 17 00:00:00 2001
From: amikelov <t.mikelov@gmail.com>
Date: Mon, 16 Sep 2019 16:00:22 +0300
Subject: [PATCH] fixed bash wrapper error with Java version (as in MIXCR &
 mitools)

---
 vdjtools | 23 ++++++++++++++++++-----
 1 file changed, 18 insertions(+), 5 deletions(-)

diff --git a/vdjtools b/vdjtools
index 1a8262db..8fca4064 100755
--- a/vdjtools
+++ b/vdjtools
@@ -2,11 +2,24 @@
 
 java="java"
 
-sedString="s/.*1\.\(.*\)\..*/\1/"
-jVersion=$($java -version 2>&1 | grep version | awk '{ print $3 }' | sed $sedString)
-if [[ $jVersion -lt 7 ]];
-then
-    echo "Wrong java version. Please use Java 7 or higher."
+sedString1="s/\s*\([^.]*\)\..*/\1/"
+sedString2="s/.*1\.\(.*\)\..*/\1/"
+jVersion=$($java -version 2>&1 | grep version | awk '{ print $3 }' | sed 's:"::g')
+jVersion1=$(echo "$jVersion" | sed $sedString1)
+if [[ jVersion1 -eq 1 ]]; then
+    jVersion2=$(echo "$jVersion" | sed $sedString2)
+    if [[ $jVersion2 -lt 7 ]];
+    then
+        echo "Wrong version of java. Please use Java 7 or higher."
+        exit 1
+    fi
+
+    if [[ $jVersion2 -lt 8 ]];
+    then
+        echo "WARNING: Several issues have been detected while using Java 7. Please consider updateing to Java 8 or higher."
+    fi
+elif [[ jVersion1 -lt 9 ]]; then
+    echo "Wrong version of java. Please use Java 7 or higher."
     exit 1
 fi