g++ version

[snafees]

Hello! I'm trying to compile from source for macbook pro M3 max (arm arch) and it's been difficult trying to get dependencies to work.
I have the latest gcc version, https://gcc.gnu.org/gcc-14/

Here's the error when running the makefile:
mkdir -p bin g++-14 -o bin/satc src/satc/satc.o src/common/kmc_api/kmc_file.o src/common/kmc_api/mmer.o src/common/kmc_api/kmer_api.o src/common/illumina_adapters_static.o libs/zstd/lib/libzstd.a \ libs/zstd/lib/libzstd.a \ -lm -std=c++17 -lpthread ld: library not found for -lSystem collect2: error: ld returned 1 exit status make: *** [bin/satc] Error

Some more info:
clang -v:
Apple clang version 14.0.3 (clang-1403.0.22.14.1) Target: arm64-apple-darwin23.1.0 Thread model: posix InstalledDir: /Library/Developer/CommandLineTools/usr/bin

[marekkokot]

Hi!

Currently, SPLASH does not compile on mac, but very soon (i hope day or so) we should publish new version that should work on mac.

Still lets investigate
I assume you first cloned repo:

git clone https://github.com/refresh-bio/splash
cd splash

Then modified Makefile here:

SPLASH/Makefile

Line 61 in e54853b

CC = g++-11

to set g++-14

Is that right?

If you modified Makefile in any way let me know, also if your command line was anything beyond

make -j

let me know.

What is the output of

g++-14 -v

because sometimes MAC os uses Clang anyway

[snafees]

Hi, thanks so much for responding! I'm excited for the mac version, let me know if I can help with testing.

Yes, here's my makefile from my fork https://github.com/snafees/SPLASH/blob/master/Makefile I may have some issues here as well, was just trying to debug given the various different errors I was getting.

The above error I posted was just after make but then in previous runs, I had also run: make clean && make AR=ar CC=g++-14 which gave me a similar error ending with ld: symbol(s) not found for architecture arm64 collect2: error: ld returned 1 exit status make: *** [bin/satc] Error 1

And here's the output for g++-14 -v:

Using built-in specs. COLLECT_GCC=g++-14 COLLECT_LTO_WRAPPER=/opt/homebrew/Cellar/gcc/14.2.0/bin/../libexec/gcc/aarch64-apple-darwin23/14/lto-wrapper Target: aarch64-apple-darwin23 Configured with: ../configure --prefix=/opt/homebrew/opt/gcc --libdir=/opt/homebrew/opt/gcc/lib/gcc/current --disable-nls --enable-checking=release --with-gcc-major-version-only --enable-languages=c,c++,objc,obj-c++,fortran,m2 --program-suffix=-14 --with-gmp=/opt/homebrew/opt/gmp --with-mpfr=/opt/homebrew/opt/mpfr --with-mpc=/opt/homebrew/opt/libmpc --with-isl=/opt/homebrew/opt/isl --with-zstd=/opt/homebrew/opt/zstd --with-pkgversion='Homebrew GCC 14.2.0' --with-bugurl=https://github.com/Homebrew/homebrew-core/issues --with-system-zlib --build=aarch64-apple-darwin23 --with-sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX14.sdk Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Homebrew GCC 14.2.0)

Thank you!

[snafees]

I've also shared with you, via email, a gdoc with the various errors and different things I tried, in case that helps!

[marekkokot]

Hi, thanks!

For now, I would like to let you know that the release will not be there today. It should be at the beginning of next week, hopefully on Monday. I will let you know, and it would be wonderful if you could test it on your machine. The code is almost ready, and it worked on our M1 MAC, so I hope it will also work on M3.

[snafees]

Okay, no worries! thank you so much, and yes sounds great 👍

[marekkokot]

Hi!

I just published a new release: https://github.com/refresh-bio/SPLASH/releases/tag/v2.11.0

You may just download the precompiled version for MAC OS arm: https://github.com/refresh-bio/SPLASH/releases/download/v2.11.0/splash-2.11.0.mac.arm64.tar.gz

Let me know if it works.
If you could also check if you are able now to compile it would be really helpful, since I tested compilation only on MAC os with M1.

[snafees]

Congrats on the new release! okay yes, will do!

[snafees]

I get the following error:

Error: cannot find splash version number for ../dsv_manip.

I'm also attaching a screenshot of what I see when running it as there's a pop-up with a warning:

[marekkokot]

Hi, thank you!

Hmm, it seems to be something to configure on mac os.
There are a couple of binaries that Splash uses. dsv_manip is the first of them that is checked, but there are also others. I guess you need to allow all of them to run. Could you try to use this solution: https://discussions.apple.com/thread/250425993?sortBy=rank
especially this:

xattr -d com.apple.quarantine /path/to/file

For all the binary files in the downloaded release?

I also uploaded docker that should work on arm based mac, would be great if you could try it: https://github.com/refresh-bio/SPLASH/pkgs/container/splash/290381428?tag=2.11.0

Thanks again for the feedback!