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eggnog-mapper: 1.0.3 -> 2.1.7

Browse source 
https://github.com/eggnogdb/eggnog-mapper/releases
This commit is contained in:
Armeen Mahdian 2022-03-18 10:03:50 -05:00
parent 739cf04cb7
commit 6cfaf0a464
1 changed files with 30 additions and 16 deletions
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46
pkgs/applications/science/biology/eggnog-mapper/default.nix
View file

@ -1,30 +1,44 @@
{ lib, fetchFromGitHub, fetchpatch, makeWrapper, python27Packages, wget, diamond, hmmer }:
{ lib
, autoPatchelfHook
, fetchFromGitHub
, python3Packages
, wget
, zlib
}:
python27Packages.buildPythonApplication rec {
python3Packages.buildPythonApplication rec {
pname = "eggnog-mapper";
version = "1.0.3";
version = "2.1.7";
src = fetchFromGitHub {
owner = "eggnogdb";
repo = "eggnog-mapper";
repo = pname;
rev = version;
sha256 = "1aaaflppy84bhkh2hb5gnzm4xgrz0rz0cgfpadr9w8cva8p0sqdv";
hash = "sha256-auVD/r8m3TAB1KYMQ7Sae23eDg6LRx/daae0505cjwU=";
};
patches = (fetchpatch {
url = "https://github.com/eggnogdb/eggnog-mapper/commit/6972f601ade85b65090efca747d2302acb58507f.patch";
sha256 = "0abnmn0bh11jihf5d3cggiild1ykawzv5f5fhb4cyyi8fvy4hcxf";
});
postPatch = ''
# Not a great solution...
substituteInPlace setup.cfg \
--replace "==" ">="
'';
nativeBuildInputs = [ makeWrapper ];
propagatedBuildInputs = [ python27Packages.biopython wget diamond hmmer ];
# make emapper find diamond & hmmer
makeWrapperArgs = [
''--prefix PATH ':' "${diamond}/bin"''
''--prefix PATH ':' "${hmmer}/bin"''
nativeBuildInputs = [
autoPatchelfHook
];
buildInputs = [
zlib
];
propagatedBuildInputs = [
wget
] ++ (with python3Packages; [
biopython
psutil
XlsxWriter
]);
# Tests rely on some of the databases being available, which is not bundled
# with this package as (1) in total, they represent >100GB of data, and (2)
# the user can download only those that interest them.