From 76b40c3cc5c5e24bb686ab5f8f20aa8a3249823a Mon Sep 17 00:00:00 2001
From: James Eapen <james.eapen@vai.org>
Date: Fri, 20 Feb 2026 12:51:40 -0500
Subject: [PATCH 1/2] rPackages.iscream: use pkgs.htslib without libdeflate
 override

now that pkgs.htslib is built with libdeflate support
---
 pkgs/development/r-modules/default.nix | 20 +++++++-------------
 1 file changed, 7 insertions(+), 13 deletions(-)

diff --git a/pkgs/development/r-modules/default.nix b/pkgs/development/r-modules/default.nix
index fb5bc3e25fc1..da2a712803ee 100644
--- a/pkgs/development/r-modules/default.nix
+++ b/pkgs/development/r-modules/default.nix
@@ -3136,19 +3136,13 @@ let
       '';
     });
 
-    iscream =
-      let
-        # https://huishenlab.github.io/iscream/articles/htslib.html
-        htslib-deflate = pkgs.htslib.overrideAttrs (attrs: {
-          buildInputs = attrs.buildInputs ++ [ pkgs.libdeflate ];
-        });
-      in
-      old.iscream.overrideAttrs (attrs: {
-        # Rhtslib (in LinkingTo) is not needed if we provide a proper htslib
-        propagatedBuildInputs =
-          builtins.filter (el: el != pkgs.rPackages.Rhtslib) attrs.propagatedBuildInputs
-          ++ [ htslib-deflate ];
-      });
+    iscream = old.iscream.overrideAttrs (attrs: {
+      # https://huishenlab.github.io/iscream/articles/htslib.html
+      # Rhtslib (in LinkingTo) is not needed if we provide a proper htslib
+      propagatedBuildInputs =
+        builtins.filter (el: el != pkgs.rPackages.Rhtslib) attrs.propagatedBuildInputs
+        ++ [ pkgs.htslib ];
+    });
 
     torch = old.torch.overrideAttrs (attrs: {
       preConfigure = ''

From d2596d019d075a4453e632feac816cca607999ac Mon Sep 17 00:00:00 2001
From: James Eapen <james.eapen@vai.org>
Date: Sun, 1 Mar 2026 17:01:40 -0500
Subject: [PATCH 2/2] rPackages.iscream: add maintainer jamespeapen

---
 maintainers/maintainer-list.nix        | 6 ++++++
 maintainers/team-list.nix              | 1 +
 pkgs/development/r-modules/default.nix | 1 +
 3 files changed, 8 insertions(+)

diff --git a/maintainers/maintainer-list.nix b/maintainers/maintainer-list.nix
index cecc92804e56..25e3c2127398 100644
--- a/maintainers/maintainer-list.nix
+++ b/maintainers/maintainer-list.nix
@@ -11828,6 +11828,12 @@
     github = "james-atkins";
     githubId = 9221409;
   };
+  jamespeapen = {
+    name = "James Eapen";
+    email = "james.eapen@vai.org";
+    github = "jamespeapen";
+    githubId = 39574560;
+  };
   jamesward = {
     email = "james@jamesward.com";
     name = "James Ward";
diff --git a/maintainers/team-list.nix b/maintainers/team-list.nix
index bb000aa7676d..bad67fd029fe 100644
--- a/maintainers/team-list.nix
+++ b/maintainers/team-list.nix
@@ -686,6 +686,7 @@ with lib.maintainers;
     members = [
       b-rodrigues
       bcdarwin
+      jamespeapen
       jbedo
       kupac
     ];
diff --git a/pkgs/development/r-modules/default.nix b/pkgs/development/r-modules/default.nix
index da2a712803ee..1c47c74d4ecb 100644
--- a/pkgs/development/r-modules/default.nix
+++ b/pkgs/development/r-modules/default.nix
@@ -385,6 +385,7 @@ let
     data_table = [ jbedo ];
     BiocManager = [ jbedo ];
     ggplot2 = [ jbedo ];
+    iscream = [ jamespeapen ];
     svaNUMT = [ jbedo ];
     svaRetro = [ jbedo ];
     StructuralVariantAnnotation = [ jbedo ];