diff options
| -rw-r--r-- | maintainers/maintainer-list.nix | 5 | ||||
| -rw-r--r-- | pkgs/applications/science/biology/bftools/default.nix | 41 | ||||
| -rw-r--r-- | pkgs/top-level/all-packages.nix | 2 |
3 files changed, 48 insertions, 0 deletions
diff --git a/maintainers/maintainer-list.nix b/maintainers/maintainer-list.nix index 9fc60c60b9c..b93eba0e8ff 100644 --- a/maintainers/maintainer-list.nix +++ b/maintainers/maintainer-list.nix @@ -4361,6 +4361,11 @@ github = "tazjin"; name = "Vincent Ambo"; }; + tbenst = { + email = "nix@tylerbenster.com"; + github = "tbenst"; + name = "Tyler Benster"; + }; teh = { email = "tehunger@gmail.com"; github = "teh"; diff --git a/pkgs/applications/science/biology/bftools/default.nix b/pkgs/applications/science/biology/bftools/default.nix new file mode 100644 index 00000000000..24a6e052df9 --- /dev/null +++ b/pkgs/applications/science/biology/bftools/default.nix @@ -0,0 +1,41 @@ +{ stdenv, lib, makeWrapper, fetchzip, jre }: + +stdenv.mkDerivation rec { + name = "bftools-${version}"; + version = "5.9.2"; + + src = fetchzip { + url = "http://downloads.openmicroscopy.org/bio-formats/${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 ]; + }; +} diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix index c7817211a85..29f8a70204d 100644 --- a/pkgs/top-level/all-packages.nix +++ b/pkgs/top-level/all-packages.nix @@ -21428,6 +21428,8 @@ in bcftools = callPackage ../applications/science/biology/bcftools { }; + bftools = callPackage ../applications/science/biology/bftools { }; + conglomerate = callPackage ../applications/science/biology/conglomerate { }; dcm2niix = callPackage ../applications/science/biology/dcm2niix { }; |