tjh.dev
1{
2 stdenv,
3 lib,
4 fetchFromGitHub,
5 cmake,
6 python3,
7 bison,
8 flex,
9 libxml2,
10 openjdk,
11 ncbi-vdb,
12 mbedtls,
13}:
14
15stdenv.mkDerivation (finalAttrs: {
16 pname = "sratoolkit";
17
18 # NOTE: When updating make sure to update ncbi-vdb as well for versions to match
19 version = "3.2.1";
20
21 src = fetchFromGitHub {
22 owner = "ncbi";
23 repo = "sra-tools";
24 tag = finalAttrs.version;
25 hash = "sha256-OeM4syv9c1rZn2ferrhXyKJu68ywVYwnHoqnviWBZy4=";
26 };
27
28 cmakeFlags = [
29 "-DVDB_INCDIR=${ncbi-vdb}/include"
30 "-DVDB_LIBDIR=${ncbi-vdb}/lib"
31 ];
32
33 buildInputs = [
34 ncbi-vdb
35 libxml2
36 mbedtls
37 ];
38
39 nativeBuildInputs = [
40 cmake
41 python3
42 bison
43 flex
44 openjdk
45 ];
46
47 meta = {
48 homepage = "https://github.com/ncbi/sra-tools";
49 description = "Collection of tools and libraries for using data in the INSDC Sequence Read Archives";
50 license = lib.licenses.ncbiPd;
51 maintainers = with lib.maintainers; [
52 thyol
53 t4ccer
54 ];
55 platforms = lib.platforms.unix;
56 };
57})