bftools: init at 5.9.2 (#53769)

This commit is contained in:
tbenst 2019-01-10 15:28:28 -08:00 committed by Dmitry Kalinkin
parent 3bcd4f37c6
commit d34f2b9b96
3 changed files with 48 additions and 0 deletions

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@ -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";

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@ -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 ];
};
}

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@ -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 { };