Transition old compiler tests from travis to CirrusCI

.cirrus.yml

@@ -1,12 +1,36 @@
-freebsd_instance:
-  image_family: freebsd-13-0
+env:
+  CIRRUS_CLONE_SUBMODULES: true
 
 task:
-  env:
-    CIRRUS_CLONE_SUBMODULES: true
+  name: FreeBSD-13
+  freebsd_instance:
+    image_family: freebsd-13-0
   install_script: pkg install -y cmake git samtools
   compile_script: |
     mkdir build && cd build
     cmake -DCMAKE_BUILD_TYPE=Release -DHAVE_TESTS=1 -DENABLE_WERROR=1 -DHAVE_SSE4_1=1 ..
     make -j $(sysctl -n hw.ncpu)
-  test_script:  ./util/regression/run_regression.sh ./build/src/mmseqs SCRATCH
+  test_script: ./util/regression/run_regression.sh ./build/src/mmseqs SCRATCH
+
+task:
+  name: "Old compilers"
+  container:
+    image: debian:jessie-slim
+    memory: 8G
+  matrix:
+    - name: Clang-4
+      install_script: apt update --yes && apt install cmake clang-4.0 libc++-dev make git ca-certificates --yes --no-install-suggests --no-install-recommends
+      env:
+        CC: clang-4.0
+        CXX: clang++-4.0
+    - name: GCC-4.9
+      install_script: apt update --yes && apt install cmake gcc-4.9 g++-4.9 make git ca-certificates --yes --no-install-suggests --no-install-recommends
+      env:
+        CC: gcc-4.9
+        CXX: g++-4.9
+  compile_script: |
+    mkdir build && cd build
+    cmake -DCMAKE_BUILD_TYPE=Release -DHAVE_TESTS=1 -DENABLE_WERROR=1 -DHAVE_SSE4_1=1 -DREQUIRE_OPENMP=0 ..
+    make -j $(nproc --all)
+  test_script: ./util/regression/run_regression.sh ./build/src/mmseqs SCRATCH SEARCH
+

src/commons/FastSort.h

@@ -1,3 +1,4 @@
+#include <algorithm>
 #ifdef ENABLE_IPS4O
 # include "simde/hedley.h"
 # if defined(HEDLEY_GCC_VERSION) && HEDLEY_GCC_VERSION_CHECK(0,0,0) && !HEDLEY_GCC_VERSION_CHECK(5,1,0) && defined(__cplusplus)

src/util/tar2db.cpp

@@ -95,15 +95,19 @@ int tar2db(int argc, const char **argv, const Command& command) {
             EXIT(EXIT_FAILURE);
         }
 
+#ifdef OPENMP
         int localThreads = par.threads;
+#endif
         mtar_t tar;
         if (Util::endsWith(".tar.gz", filenames[i]) || Util::endsWith(".tgz", filenames[i])) {
 #ifdef HAVE_ZLIB
             if (mtar_gzopen(&tar, filenames[i].c_str()) != MTAR_ESUCCESS) {
                 Debug(Debug::ERROR) << "Cannot open file " << filenames[i] << "\n";
                 EXIT(EXIT_FAILURE);
             }
+#ifdef OPENMP
             localThreads = 1;
+#endif
 #else
             Debug(Debug::ERROR) << "MMseqs2 was not compiled with zlib support. Cannot read compressed input.\n";
             EXIT(EXIT_FAILURE);