debian/patches/fix_tests.patch

+Description: Fix some of the test src files to work in autopkgtest
+ as some of the tests do not work as the paths have either been hardcoded or SIGSEGV is thrown
+Author: Shayan Doust <hello@shayandoust.me>
+Last-Update: 2019-07-20
+---
+
+Index: mmseqs2/src/test/TestScoreMatrixSerialization.cpp
+===================================================================
+--- mmseqs2.orig/src/test/TestScoreMatrixSerialization.cpp	2019-07-20 16:21:13.549699250 +0100
++++ mmseqs2/src/test/TestScoreMatrixSerialization.cpp	2019-07-20 16:21:13.545699216 +0100
+@@ -18,10 +18,11 @@
+     ScoreMatrix* unserialized = ScoreMatrix::unserialize(serialized, subMat.alphabetSize, 3);
+ 
+     Debug(Debug::INFO) << unserialized->elementSize << " " << unserialized->rowSize << " "
+-                       << unserialized->score[0] << " " << unserialized->index[0] << "\n";
+-
+-    ScoreMatrix::cleanup(unserialized);
++                       << unserialized->score[0] << "\n";
++    
+     free(serialized);
+-    ScoreMatrix::cleanup(extMattwo);
++    // Why not use an operator. Will free & destruct & will not SIGSEGV
++    delete(unserialized);
++   
+     return EXIT_SUCCESS;
+ }

debian/patches/series

+fix_tests.patch
 fix_src_zstd_includes.patch
 fix_util_installation.patch
 use_system_zstd.patch

debian/tests/run-unit-test

@@ -55,3 +55,5 @@ echo "Invoking test_translate"
 ./test_translate
 echo "Invoking test_util"
 ./test_util
+echo "Invoking test_scorematrixserialization"
+./test_scorematrixserialization