646b892680
Some checks failed
Periodic Merges (6h) / master → staging-nixos (push) Failing after 12m50s
Periodic Merges (6h) / master → staging-next (push) Failing after 12m54s
Periodic Merges (24h) / merge-base(master,staging) → haskell-updates (push) Failing after 11m54s
Periodic Merges (6h) / staging-next → staging (push) Failing after 12m13s
Periodic Merges (24h) / staging-next-25.05 → staging-25.05 (push) Failing after 13m24s
Periodic Merges (24h) / release-25.05 → staging-next-25.05 (push) Failing after 14m28s
138 lines
2.9 KiB
Nix
138 lines
2.9 KiB
Nix
{
|
|
stdenv,
|
|
lib,
|
|
fetchFromGitHub,
|
|
python3,
|
|
makeWrapper,
|
|
eigen_3_4_0,
|
|
fftw,
|
|
libtiff,
|
|
libpng,
|
|
zlib,
|
|
ants,
|
|
bc,
|
|
qt5,
|
|
libGL,
|
|
libGLU,
|
|
libX11,
|
|
libXext,
|
|
less,
|
|
withGui ? true,
|
|
}:
|
|
|
|
stdenv.mkDerivation (finalAttrs: {
|
|
pname = "mrtrix";
|
|
version = "3.0.7";
|
|
|
|
src = fetchFromGitHub {
|
|
owner = "MRtrix3";
|
|
repo = "mrtrix3";
|
|
rev = finalAttrs.version;
|
|
hash = "sha256-cPI6Ac1Yp5yb07zv9r5O7ZbsHpjrv5BkzbAW1qgj3gQ=";
|
|
fetchSubmodules = true;
|
|
};
|
|
|
|
nativeBuildInputs = [
|
|
makeWrapper
|
|
less
|
|
python3
|
|
]
|
|
++ lib.optional withGui qt5.wrapQtAppsHook;
|
|
|
|
buildInputs = [
|
|
ants
|
|
eigen_3_4_0
|
|
python3
|
|
fftw
|
|
libtiff
|
|
libpng
|
|
zlib
|
|
]
|
|
++ lib.optionals withGui [
|
|
libGL
|
|
libGLU
|
|
libX11
|
|
libXext
|
|
qt5.qtbase
|
|
qt5.qtsvg
|
|
];
|
|
|
|
nativeInstallCheckInputs = [ bc ];
|
|
|
|
postPatch = ''
|
|
patchShebangs --build ./build ./configure ./run_tests
|
|
patchShebangs --host ./bin/*
|
|
|
|
# patching interpreters before fixup is needed for tests:
|
|
patchShebangs testing/binaries/data/vectorstats/*py
|
|
|
|
substituteInPlace ./run_tests \
|
|
--replace-fail 'git submodule update --init $datadir >> $LOGFILE 2>&1' ""
|
|
|
|
# reduce build noise
|
|
substituteInPlace ./configure \
|
|
--replace-fail "[ '-Wall' ]" "[]"
|
|
|
|
# fix error output (cuts off after a few lines otherwise)
|
|
substituteInPlace ./build \
|
|
--replace-fail 'stderr=subprocess.PIPE' 'stderr=None'
|
|
'';
|
|
|
|
configurePhase = ''
|
|
runHook preConfigure
|
|
export EIGEN_CFLAGS="-isystem ${eigen_3_4_0}/include/eigen3"
|
|
unset LD # similar to https://github.com/MRtrix3/mrtrix3/issues/1519
|
|
./configure ${lib.optionalString (!withGui) "-nogui"};
|
|
runHook postConfigure
|
|
'';
|
|
|
|
buildPhase = ''
|
|
runHook preBuild
|
|
./build
|
|
(cd testing && ../build)
|
|
runHook postBuild
|
|
'';
|
|
|
|
installCheckPhase = ''
|
|
runHook preInstallCheck
|
|
./run_tests units
|
|
./run_tests binaries
|
|
|
|
# can also `./run_tests scripts`, but this fails due to lack of FSL package
|
|
# (and there's no convenient way to disable individual tests)
|
|
runHook postInstallCheck
|
|
'';
|
|
doInstallCheck = true;
|
|
|
|
installPhase = ''
|
|
runHook preInstall
|
|
mkdir -p $out
|
|
cp -ar lib $out/lib
|
|
cp -ar bin $out/bin
|
|
runHook postInstall
|
|
'';
|
|
|
|
preFixup =
|
|
if withGui then
|
|
''
|
|
qtWrapperArgs+=(--prefix PATH : ${lib.makeBinPath [ ants ]})
|
|
''
|
|
else
|
|
''
|
|
for prog in $out/bin/*; do
|
|
if [[ -x "$prog" ]]; then
|
|
wrapProgram $prog --prefix PATH : ${lib.makeBinPath [ ants ]}
|
|
fi
|
|
done
|
|
'';
|
|
|
|
meta = with lib; {
|
|
broken = (stdenv.hostPlatform.isLinux && stdenv.hostPlatform.isAarch64);
|
|
homepage = "https://github.com/MRtrix3/mrtrix3";
|
|
description = "Suite of tools for diffusion imaging";
|
|
maintainers = with maintainers; [ bcdarwin ];
|
|
platforms = platforms.linux;
|
|
license = licenses.mpl20;
|
|
};
|
|
})
|