Error when installing from source (fatal error: hwy/foreach_target.h: No such file or directory)

[guidohooiveld]

I would like to again install (update) fastp from source. Previously this always went fine, but with the latest version I ran into an error; this happened at the building stage, when make is called (make -j).

guidoh@fedora:~/fastp$ make -j
g++ -c src/simd.cpp -o obj/simd.o -std=c++11 -pthread -g -O3 -MD -MP -I. -I./inc     
src/simd.cpp:6:10: fatal error: hwy/foreach_target.h: No such file or directory
    6 | #include <hwy/foreach_target.h>  // IWYU pragma: keep
      |          ^~~~~~~~~~~~~~~~~~~~~~
compilation terminated.
make: *** [Makefile:67: obj/simd.o] Error 1
guidoh@fedora:~/fastp$ 

Any suggestion what goes wrong?

I am running Fedora, and I confirmed all required dependencies are installed (and up-to-date).

guidoh@fedora:~/fastp$ sudo dnf install isa-l libdeflate highway
Updating and loading repositories:
Repositories loaded.
Package "isa-l-2.32.1-1.fc44.x86_64" is already installed.
Package "libdeflate-1.25-3.fc44.x86_64" is already installed.
Package "highway-1.3.0-2.fc44.x86_64" is already installed.

Nothing to do.
guidoh@fedora:~/fastp$ uname -a 
Linux fedora 7.0.13-200.fc44.x86_64 #1 SMP PREEMPT_DYNAMIC Fri Jun 19 22:51:30 UTC 2026 x86_64 GNU/Linux
guidoh@fedora:~/fastp$ 

[KimYannn]

Seems highway is too old, could u plz try as following https://github.com/OpenGene/fastp#step-3-install-highway.

[guidohooiveld]

Thanks! Installing highway from GitHub indeed did the trick.

Still I don't fully understand why it did work before, since highway highway-1.3.0-2.fc44.x86_64 was already installed on my system...
Anyway, fastp is installed now.

For the archive:
First of all, it turned out that cmake wasn't installed on my system, so first:
guidoh@fedora:~$ sudo dnf install cmake

Then:

guidoh@fedora:~$ git clone --depth=1 --branch 1.3.0 https://github.com/google/highway.git
guidoh@fedora:~$ cd highway
gguidoh@fedora:~/highway$:~$ cmake -B build -DCMAKE_BUILD_TYPE=Release -DBUILD_SHARED_LIBS=OFF -DHWY_ENABLE_TESTS=OFF -DHWY_ENABLE_EXAMPLES=OFF
guidoh@fedora:~/highway$:~$ cmake --build build
guidoh@fedora:~/highway$:~$ sudo cmake --install build

Finally:

guidoh@fedora:~/highway$ cd ..
guidoh@fedora:~$ cd fastp
guidoh@fedora:~/fastp$ make -j
g++ -c src/simd.cpp -o obj/simd.o -std=c++11 -pthread -g -O3 -MD -MP -I. -I./inc  -I/usr/local/include -DHWY_STATIC_DEFINE   
g++ ./obj/adaptertrimmer.o ./obj/basecorrector.o ./obj/duplicate.o ./obj/evaluator.o ./obj/fastareader.o ./obj/fastqreader.o ./obj/filter.o ./obj/filterresult.o ./obj/htmlreporter.o ./obj/jsonreporter.o ./obj/main.o ./obj/matcher.o ./obj/nucleotidetree.o ./obj/options.o ./obj/overlapanalysis.o ./obj/peprocessor.o ./obj/polyx.o ./obj/processor.o ./obj/read.o ./obj/readpool.o ./obj/seprocessor.o ./obj/sequence.o ./obj/simd.o ./obj/stats.o ./obj/threadconfig.o ./obj/umiprocessor.o ./obj/unittest.o ./obj/writer.o ./obj/writerthread.o -o fastp  -L/usr/local/lib64    -lisal -ldeflate -lhwy -lpthread 
guidoh@fedora:~/fastp$ sudo make install
install fastp /usr/local/bin/fastp
Installed.
guidoh@fedora:~/fastp$ fastp --version
fastp 1.3.6

Added (some last thoughts on this):
At step 3 of the fastp installation instructions highway version 1.3.0 is referred to. This is also the version that is installed by default on Fedora. https://github.com/OpenGene/fastp#step-3-install-highway

Yet, installing highway from Github with the argument --branch 1.3.0 also installs version 1.3.0. So it is likely that by manually installing it, highway is build/configured such way that it is compatible with the latest release of fastp.