I am assembling a plant genome using ABySS 2.0 short-read assembler. I am using the GitHub documentation to perform the installation of ABySS 2.0. I used Homebrew for installing ABySS, gcc, and all other dependencies, mentioned in the documentation.

Query After running the following script, I haven't been able to make progress.

./autogen.sh
mkdir build
cd build
../configure --prefix=/path/to/abyss

Here, --prefix= was set with path to a folder where I wanted to install ABySS. When I ran, It showed the following error.

checking for g++ -std=c++11 option to support OpenMP... -fopenmp
configure: error: ABySS requires the btllib C++ libraries, which may
    be downloaded from here: https://github.com/bcgsc/btllib
    It is necessary to compile btllib. The readme
    in the GitHub repo contains instructs to compile btllib.

I installed btllib-1.7.0.tar.gz from this GitHub site, compiled then entered the following commands on the console.

export CPPFLAGS="-isystem home/palmyra/abyss/btllib-1.7.0/install/include $CPPFLAGS"
export LDFLAGS="-L/home/palmyra/abyss/btllib-1.7.0/install/lib -lbtllib $LDFLAGS"

After this, when I ran the ../configure --prefix=/path/to/abyss

it shows C++ compiler cannot create executables

the complete error:

checking for g++... g++
checking whether the C++ compiler works... no
configure: error: in '/home/palmyra/abyss/build':
configure: error: C++ compiler cannot create executables

The configure.log file can be accessed at here

Can someone help to troubleshoot it. I am very much confused.

====================================================================

EDIT: I removed the LDFLAGS and now C++ compiler creates executables. Currently, btllib-1.7 is not able to be compiled. I don't understand if it is because C++ compiler used for compiling Python matches the one used for compiling btllib.

Compiling btllib-1.7 shows the following error.

./../home/palmyra/abyss/btllib-1.7.0/include/btllib/hashing_internals.hpp:2896:11: error: inline variables are only available with ‘-std=c++17’ or ‘-std=gnu++17’ [-Werror=c++17-extensions]
 2896 | constexpr inline const uint64_t*
      |           ^~~~~~
../../home/palmyra/abyss/btllib-1.7.0/include/btllib/hashing_internals.hpp:3156:11: error: inline variables are only available with ‘-std=c++17’ or ‘-std=gnu++17’ [-Werror=c++17-extensions]
 3156 | constexpr inline const uint64_t* const LEVEL_X_AA_SEED_TABLE[4] = {
      |           ^~~~~~
../../home/palmyra/abyss/btllib-1.7.0/include/btllib/hashing_internals.hpp:3162:11: error: inline variables are only available with ‘-std=c++17’ or ‘-std=gnu++17’ [-Werror=c++17-extensions]
 3162 | constexpr inline const uint64_t* const*
      |           ^~~~~~
../../home/palmyra/abyss/btllib-1.7.0/include/btllib/hashing_internals.hpp:3169:11: error: inline variables are only available with ‘-std=c++17’ or ‘-std=gnu++17’ [-Werror=c++17-extensions]
 3169 | constexpr inline const uint64_t* const*
      |           ^~~~~~
In file included from ../../home/palmyra/abyss/btllib-1.7.0/include/btllib/nthash.hpp:13:
../../home/palmyra/abyss/btllib-1.7.0/include/btllib/nthash_kmer.hpp:14:11: error: nested namespace definitions only available with ‘-std=c++17’ or ‘-std=gnu++17’ [-Werror=c++17-extensions]
   14 | namespace btllib::hashing_internals {
      |           ^~~~~~
In file included from ../../home/palmyra/abyss/btllib-1.7.0/include/btllib/nthash.hpp:14:
../../home/palmyra/abyss/btllib-1.7.0/include/btllib/nthash_seed.hpp:15:11: error: nested namespace definitions only available with ‘-std=c++17’ or ‘-std=gnu++17’ [-Werror=c++17-extensions]
   15 | namespace btllib::hashing_internals {
      |           ^~~~~~
cc1plus: all warnings being treated as errors
ninja: build stopped: subcommand failed.
Traceback (most recent call last):
  File "/home/palmyra/abyss/btllib-1.7.0/./compile", line 182, in <module>
    sp.run(
  File "/usr/lib/python3.11/subprocess.py", line 571, in run
    raise CalledProcessError(retcode, process.args,
subprocess.CalledProcessError: Command '['\n    if [ -f /tmp/btllib-build-eLg_1lWEQkGwS9dB7HujlQ/venv/bin/activate ]; then\n      . /tmp/btllib-build-eLg_1lWEQkGwS9dB7HujlQ/venv/bin/activate;\n    fi &&\n    export AR=gcc-ar &&\n    meson setup --buildtype release -Db_lto=true -Db_ndebug=true -Db_coverage=false --prefix=/home/palmyra/abyss/btllib-1.7.0/install /tmp/btllib-build-eLg_1lWEQkGwS9dB7HujlQ &&\n    cd /tmp/btllib-build-eLg_1lWEQkGwS9dB7HujlQ &&\n    ninja install &&\n    cd .. &&\n    if [ -f /tmp/btllib-build-eLg_1lWEQkGwS9dB7HujlQ/venv/bin/activate ]; then\n      deactivate;\n    fi\n  ']' returned non-zero exit status 1.

This is the compile Python file