From b377e019cacb877c7e1f34714a7dc98064e08d04 Mon Sep 17 00:00:00 2001
From: Vincent Laporte <Vincent.Laporte@gmail.com>
Date: Tue, 23 Apr 2024 08:50:17 +0200
Subject: ocamlPackages.phylogenetics: unstable-2022-05-06 → 0.2.0
MIME-Version: 1.0
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---
 .../ocaml-modules/phylogenetics/default.nix        | 22 +++++++++-------------
 pkgs/top-level/ocaml-packages.nix                  |  1 -
 2 files changed, 9 insertions(+), 14 deletions(-)

diff --git a/pkgs/development/ocaml-modules/phylogenetics/default.nix b/pkgs/development/ocaml-modules/phylogenetics/default.nix
index 7c4f90b6f976d..76856024c09a6 100644
--- a/pkgs/development/ocaml-modules/phylogenetics/default.nix
+++ b/pkgs/development/ocaml-modules/phylogenetics/default.nix
@@ -1,32 +1,27 @@
 { lib
-, ocaml
 , buildDunePackage
-, fetchFromGitHub
+, fetchurl
 , ppx_deriving
 , bppsuite
 , alcotest
 , angstrom-unix
-, biocaml
+, biotk
 , core
 , gsl
 , lacaml
 , menhir
 , menhirLib
 , printbox-text
+, yojson
 }:
 
-lib.throwIf (lib.versionAtLeast ocaml.version "5.0")
-  "phylogenetics is not compatible with OCaml ${ocaml.version}"
-
 buildDunePackage rec {
   pname = "phylogenetics";
-  version = "unstable-2022-05-06";
+  version = "0.2.0";
 
-  src = fetchFromGitHub {
-    owner = "biocaml";
-    repo = pname;
-    rev = "cd7c624d0f98e31b02933ca4511b9809b26d35b5";
-    sha256 = "sha256:0w0xyah3hj05hxg1rsa40hhma3dm1cyq0zvnjrihhf22laxap7ga";
+  src = fetchurl {
+    url = "https://github.com/biocaml/phylogenetics/releases/download/v${version}/phylogenetics-${version}.tbz";
+    hash = "sha256-JFpYp3pyW7PrBjqCwwDZxkJPA84dp6Qs8rOPvHPY92o=";
   };
 
   minimalOCamlVersion = "4.08";
@@ -36,13 +31,14 @@ buildDunePackage rec {
   nativeBuildInputs = [ menhir ];
   propagatedBuildInputs = [
     angstrom-unix
-    biocaml
+    biotk
     core
     gsl
     lacaml
     menhirLib
     ppx_deriving
     printbox-text
+    yojson
   ];
 
   checkPhase = ''
diff --git a/pkgs/top-level/ocaml-packages.nix b/pkgs/top-level/ocaml-packages.nix
index de27e8d83d8bd..932ff6505b782 100644
--- a/pkgs/top-level/ocaml-packages.nix
+++ b/pkgs/top-level/ocaml-packages.nix
@@ -835,7 +835,6 @@ let
       phylogenetics = let
         angstrom = self.angstrom.override { inherit ppx_let; };
       in callPackage ../development/ocaml-modules/phylogenetics {
-        inherit biocaml;
         ppx_deriving = self.ppx_deriving.override { inherit (jsDeps) ppxlib; };
         angstrom-unix = self.angstrom-unix.override { inherit angstrom; };
       };
-- 
cgit 1.4.1