Fix the htscodecs path

samtools · Sep 13, 2022 · c63a253 · c63a253
1 parent e0c831b
commit c63a253
Show file tree

Hide file tree

Showing 2 changed files with 1 addition and 3 deletions.
diff --git a/scripts/install-samtools.sh b/scripts/install-samtools.sh
@@ -3,6 +3,4 @@ set -ex
 wget https://github.com/samtools/samtools/releases/download/1.14/samtools-1.14.tar.bz2
 # CRAM Interop Tests are dependent on the test files in samtools-1.14/htslib-1.14/htscodes/tests/dat
 tar -xjvf samtools-1.14.tar.bz2
-echo "print current dir"
-pwd
 cd samtools-1.14 && ./configure --prefix=/usr && make && sudo make install
diff --git a/src/test/java/htsjdk/utils/SamtoolsTestUtils.java b/src/test/java/htsjdk/utils/SamtoolsTestUtils.java
@@ -51,7 +51,7 @@ public static String getSamtoolsBin() {
 
     public static String getCRAMInteropData() {
         final String samtoolsPath = System.getenv(SAMTOOLS_BINARY_ENV_VARIABLE);
-        return samtoolsPath == null ? "../htscodecs/tests" : "/samtools-"+expectedHtslibVersion+ "/htslib-"+expectedHtslibVersion+"/htscodecs/tests";
+        return samtoolsPath == null ? "../htscodecs/tests" : "./samtools-"+expectedHtslibVersion+ "/htslib-"+expectedHtslibVersion+"/htscodecs/tests";
     }
 
     /**