From 8b4e93505239b76c9b6ee478a5924cf4437ee19d Mon Sep 17 00:00:00 2001
From: Aaron Jheng <wentworth@outlook.com>
Date: Mon, 3 Jun 2024 10:27:58 +0800
Subject: [PATCH] poretools: remove

---
 .../science/biology/poretools/default.nix     | 23 -------------------
 pkgs/top-level/aliases.nix                    |  1 +
 pkgs/top-level/all-packages.nix               |  2 --
 3 files changed, 1 insertion(+), 25 deletions(-)
 delete mode 100644 pkgs/applications/science/biology/poretools/default.nix

diff --git a/pkgs/applications/science/biology/poretools/default.nix b/pkgs/applications/science/biology/poretools/default.nix
deleted file mode 100644
index 27a1b7ed3841..000000000000
--- a/pkgs/applications/science/biology/poretools/default.nix
+++ /dev/null
@@ -1,23 +0,0 @@
-{ lib, python2Packages, fetchFromGitHub }:
-
-python2Packages.buildPythonPackage rec {
-  pname = "poretools";
-  version = "unstable-2016-07-10";
-
-  src = fetchFromGitHub {
-    repo = pname;
-    owner = "arq5x";
-    rev = "e426b1f09e86ac259a00c261c79df91510777407";
-    sha256 = "0bglj833wxpp3cq430p1d3xp085ls221js2y90w7ir2x5ay8l7am";
-  };
-
-  propagatedBuildInputs = [ python2Packages.h5py python2Packages.matplotlib python2Packages.seaborn python2Packages.pandas ];
-
-  meta = {
-    description = "Toolkit for working with nanopore sequencing data from Oxford Nanopore";
-    license = lib.licenses.mit;
-    homepage = "https://poretools.readthedocs.io/en/latest/";
-    maintainers = [ lib.maintainers.rybern ];
-    broken = true; # Build error: h5py-3.9.0 not supported for interpreter python2.7
-  };
-}
diff --git a/pkgs/top-level/aliases.nix b/pkgs/top-level/aliases.nix
index 27ada3ceeafc..b022d060498b 100644
--- a/pkgs/top-level/aliases.nix
+++ b/pkgs/top-level/aliases.nix
@@ -1020,6 +1020,7 @@ mapAliases ({
   pltScheme = racket; # just to be sure
   pmdk = throw "'pmdk' is discontinued, no further support or maintenance is planned by upstream"; # Added 2023-02-06
   pomotroid = throw "pomotroid has been removed from nixpkgs, because it depended on an insecure version of electron"; # Added 2023-09-12
+  poretools = throw "poretools has been removed from nixpkgs, as it was broken and unmaintained"; # Added 2024-06-03
   powerdns = pdns; # Added 2022-03-28
 
   # postgresql plugins
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index 1068f2ed4f21..08e92ec8cce2 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -11925,8 +11925,6 @@ with pkgs;
 
   popfile = callPackage ../tools/text/popfile { };
 
-  poretools = callPackage ../applications/science/biology/poretools { };
-
   porsmo = callPackage ../applications/misc/porsmo { };
 
   pantum-driver = callPackage ../misc/drivers/pantum-driver { };