From 00de350a25260ebbefb26865af6c166bd3518adb Mon Sep 17 00:00:00 2001
From: Daniel Winkler <daniel.winkler@s.wu.ac.at>
Date: Sun, 1 Jun 2025 23:47:47 +0200
Subject: [PATCH] new default template

---
 flake.nix              |   6 +-
 templates/py/flake.nix | 143 -----------------------------------------
 2 files changed, 5 insertions(+), 144 deletions(-)
 delete mode 100644 templates/py/flake.nix

diff --git a/flake.nix b/flake.nix
index 7e07665..2ef6985 100644
--- a/flake.nix
+++ b/flake.nix
@@ -7,7 +7,11 @@
         path = ./templates/r;
         description = "R development environment";
       };
+      sci = {
+        path = ./templates/sci;
+        description = "Scientific computing environment (Julia, Python, R)";
+      }
     };
-    defaultTemplate = self.templates.r;
+    defaultTemplate = self.templates.sci;
   };
 }
diff --git a/templates/py/flake.nix b/templates/py/flake.nix
deleted file mode 100644
index 972ebf7..0000000
--- a/templates/py/flake.nix
+++ /dev/null
@@ -1,143 +0,0 @@
-{
-  description = "Project Template";
-  inputs = {
-    rixpkgs.url = "https://github.com/rstats-on-nix/nixpkgs/archive/2025-05-19.tar.gz";
-    nixpkgs.url = "github:nixos/nixpkgs/nixpkgs-unstable";
-    nCats.url = "github:dwinkler1/nixCatsConfig";
-    nCats.inputs.nixpkgs.follows = "nixpkgs";
-    pyproject-nix = {
-      url = "github:pyproject-nix/pyproject.nix";
-      inputs.nixpkgs.follows = "nixpkgs";
-    };
-
-    uv2nix = {
-      url = "github:pyproject-nix/uv2nix";
-      inputs.pyproject-nix.follows = "pyproject-nix";
-      inputs.nixpkgs.follows = "nixpkgs";
-    };
-
-    pyproject-build-systems = {
-      url = "github:pyproject-nix/build-system-pkgs";
-      inputs.pyproject-nix.follows = "pyproject-nix";
-      inputs.uv2nix.follows = "uv2nix";
-      inputs.nixpkgs.follows = "nixpkgs";
-    };
-  };
-  outputs = {
-    self,
-    nixpkgs,
-    nCats,
-    ...
-  } @ inputs: let
-    forSystems = nixpkgs.lib.genAttrs nixpkgs.lib.platforms.all;
-  in {
-    packages = forSystems (
-      system: let
-        inherit (nCats) utils;
-        finalPackage = nCats.packages.${system}.default.override (prev: {
-          dependencyOverlays =
-            prev.dependencyOverlays
-            ++ [
-              (utils.standardPluginOverlay inputs)
-              (final: prev: {
-                rpkgs = inputs.rixpkgs.legacyPackages.${system};
-              })
-              (final: prev: let
-                # Load a uv workspace from a workspace root.
-                # Uv2nix treats all uv projects as workspace projects.
-                workspace = uv2nix.lib.workspace.loadWorkspace {workspaceRoot = ./.;};
-
-                # Create package overlay from workspace.
-                overlay = workspace.mkPyprojectOverlay {
-                  # Prefer prebuilt binary wheels as a package source.
-                  # Sdists are less likely to "just work" because of the metadata missing from uv.lock.
-                  # Binary wheels are more likely to, but may still require overrides for library dependencies.
-                  sourcePreference = "wheel"; # or sourcePreference = "sdist";
-                  # Optionally customise PEP 508 environment
-                  # environ = {
-                  #     platform_release = "5.10.65";
-                  # };
-                };
-
-                # Extend generated overlay with build fixups
-                #
-                # Uv2nix can only work with what it has, and uv.lock is missing essential metadata to perform some builds.
-                # This is an additional overlay implementing build fixups.
-                # See:
-                # - https://pyproject-nix.github.io/uv2nix/FAQ.html
-                pyprojectOverrides = _final: _prev: {
-                  # Implement build fixups here.
-                  # Note that uv2nix is _not_ using Nixpkgs buildPythonPackage.
-                  # It's using https://pyproject-nix.github.io/pyproject.nix/build.html
-                };
-
-                # Construct package set
-                pythonSet =
-                  # Use base package set from pyproject.nix builders
-                  (pkgs.callPackage pyproject-nix.build.packages {inherit python;}).overrideScope
-                  (
-                    lib.composeManyExtensions [
-                      pyproject-build-systems.overlays.default
-                      overlay
-                      pyprojectOverrides
-                    ]
-                  );
-              in {
-                venv = pythonSet.mkVirtualEnv builtins.toString ./. workspace.deps.default;
-              })
-              (import (builtins.path {
-                path = ./rpkgs.nix;
-                name = "my-rpackages";
-              }))
-            ];
-          categoryDefinitions = utils.mergeCatDefs prev.categoryDefinitions (
-            {
-              pkgs,
-              settings,
-              categories,
-              name,
-              extra,
-              mkPlugin,
-              ...
-            } @ packageDef: let
-              myPy = pkgs.python313;
-            in {
-              lspsAndRuntimeDeps.rdev = with pkgs; [
-                myPy
-                uv
-                nodejs
-                ruff
-                just
-                wget
-                python313Packages.python-lsp-server
-              ];
-              environmentVariables.rdev = {
-                # Prevent uv from managing Python downloads
-                UV_PYTHON_DOWNLOADS = "never";
-                # Force uv to use nixpkgs Python interpreter
-                UV_PYTHON = myPy.interpreter;
-              };
-            }
-          );
-
-          packageDefinitions =
-            prev.packageDefinitions
-            // {
-              nixCats = utils.mergeCatDefs prev.packageDefinitions.nixCats (
-                {...}: {
-                  settings = {
-                    suffix-path = false;
-                    suffix-LD = false;
-                  };
-                  categories = {
-                    rdev = true;
-                  };
-                }
-              );
-            };
-        });
-      in
-        utils.mkAllWithDefault finalPackage
-    );
-  };
-}