2024-07-10 13:32:26 -06:00
|
|
|
{
|
|
|
|
|
stdenv,
|
|
|
|
|
lib,
|
|
|
|
|
fetchFromGitHub,
|
|
|
|
|
cmake,
|
|
|
|
|
python3,
|
|
|
|
|
bison,
|
|
|
|
|
flex,
|
|
|
|
|
libxml2,
|
|
|
|
|
openjdk,
|
|
|
|
|
ncbi-vdb,
|
|
|
|
|
mbedtls,
|
|
|
|
|
}:
|
|
|
|
|
|
|
|
|
|
stdenv.mkDerivation (finalAttrs: {
|
|
|
|
|
pname = "sratoolkit";
|
|
|
|
|
|
|
|
|
|
# NOTE: When updating make sure to update ncbi-vdb as well for versions to match
|
2025-04-18 18:35:12 -06:00
|
|
|
version = "3.2.1";
|
2024-07-10 13:32:26 -06:00
|
|
|
|
|
|
|
|
src = fetchFromGitHub {
|
|
|
|
|
owner = "ncbi";
|
|
|
|
|
repo = "sra-tools";
|
2025-01-03 21:24:13 +01:00
|
|
|
tag = finalAttrs.version;
|
2025-04-18 18:35:12 -06:00
|
|
|
hash = "sha256-OeM4syv9c1rZn2ferrhXyKJu68ywVYwnHoqnviWBZy4=";
|
2024-07-10 13:32:26 -06:00
|
|
|
};
|
|
|
|
|
|
|
|
|
|
cmakeFlags = [
|
|
|
|
|
"-DVDB_INCDIR=${ncbi-vdb}/include"
|
|
|
|
|
"-DVDB_LIBDIR=${ncbi-vdb}/lib"
|
|
|
|
|
];
|
|
|
|
|
|
|
|
|
|
buildInputs = [
|
|
|
|
|
ncbi-vdb
|
|
|
|
|
libxml2
|
|
|
|
|
mbedtls
|
|
|
|
|
];
|
|
|
|
|
|
|
|
|
|
nativeBuildInputs = [
|
|
|
|
|
cmake
|
|
|
|
|
python3
|
|
|
|
|
bison
|
|
|
|
|
flex
|
|
|
|
|
openjdk
|
|
|
|
|
];
|
|
|
|
|
|
|
|
|
|
meta = {
|
|
|
|
|
homepage = "https://github.com/ncbi/sra-tools";
|
|
|
|
|
description = "Collection of tools and libraries for using data in the INSDC Sequence Read Archives";
|
|
|
|
|
license = lib.licenses.ncbiPd;
|
|
|
|
|
maintainers = with lib.maintainers; [
|
|
|
|
|
thyol
|
|
|
|
|
t4ccer
|
|
|
|
|
];
|
|
|
|
|
platforms = lib.platforms.unix;
|
|
|
|
|
};
|
|
|
|
|
})
|
