{ stdenv, lib, makeWrapper, fetchzip, jre }: stdenv.mkDerivation rec { pname = "bftools"; version = "5.9.2"; src = fetchzip { url = "http://downloads.openmicroscopy.org/bio-formats/${version}/artifacts/bftools.zip"; sha256 = "08lmbg3kfxh17q6548il0i2h3f9a6ch8r0r067p14dajhzfpjyqj"; }; installPhase = '' find . -maxdepth 1 -perm -111 -type f -not -name "*.sh" \ -exec install -vD {} "$out"/bin/{} \; mkdir $out/libexec mkdir -p $out/share/java cp ./*.sh $out/libexec cp ./*.jar $out/share/java for file in $out/bin/*; do substituteInPlace $file --replace "\$BF_DIR" $out/libexec done substituteInPlace $out/libexec/bf.sh --replace "\$BF_JAR_DIR" $out/share/java ''; postFixup = '' wrapProgram $out/libexec/bf.sh --prefix PATH : "${lib.makeBinPath [ jre ]}" ''; nativeBuildInputs = [ makeWrapper ]; meta = with stdenv.lib; { description = "A bundle of scripts for using Bio-Formats on the command line with bioformats_package.jar already included"; license = licenses.gpl2; platforms = platforms.all; homepage = https://www.openmicroscopy.org/bio-formats/; maintainers = [ maintainers.tbenst ]; }; }