feat: add serena-mcp

.serena/.gitignore

@@ -0,0 +1,2 @@
+/cache
+/project.local.yml

.serena/project.yml

@@ -0,0 +1,152 @@
+# the name by which the project can be referenced within Serena
+project_name: "claude-vm"
+
+
+# list of languages for which language servers are started; choose from:
+#   al                  bash                clojure             cpp                 csharp
+#   csharp_omnisharp    dart                elixir              elm                 erlang
+#   fortran             fsharp              go                  groovy              haskell
+#   java                julia               kotlin              lua                 markdown
+#   matlab              nix                 pascal              perl                php
+#   php_phpactor        powershell          python              python_jedi         r
+#   rego                ruby                ruby_solargraph     rust                scala
+#   swift               terraform           toml                typescript          typescript_vts
+#   vue                 yaml                zig
+#   (This list may be outdated. For the current list, see values of Language enum here:
+#   https://github.com/oraios/serena/blob/main/src/solidlsp/ls_config.py
+#   For some languages, there are alternative language servers, e.g. csharp_omnisharp, ruby_solargraph.)
+# Note:
+#   - For C, use cpp
+#   - For JavaScript, use typescript
+#   - For Free Pascal/Lazarus, use pascal
+# Special requirements:
+#   Some languages require additional setup/installations.
+#   See here for details: https://oraios.github.io/serena/01-about/020_programming-languages.html#language-servers
+# When using multiple languages, the first language server that supports a given file will be used for that file.
+# The first language is the default language and the respective language server will be used as a fallback.
+# Note that when using the JetBrains backend, language servers are not used and this list is correspondingly ignored.
+languages:
+- nix
+
+# the encoding used by text files in the project
+# For a list of possible encodings, see https://docs.python.org/3.11/library/codecs.html#standard-encodings
+encoding: "utf-8"
+
+# line ending convention to use when writing source files.
+# Possible values: unset (use global setting), "lf", "crlf", or "native" (platform default)
+# This does not affect Serena's own files (e.g. memories and configuration files), which always use native line endings.
+line_ending:
+
+# The language backend to use for this project.
+# If not set, the global setting from serena_config.yml is used.
+# Valid values: LSP, JetBrains
+# Note: the backend is fixed at startup. If a project with a different backend
+# is activated post-init, an error will be returned.
+language_backend:
+
+# whether to use project's .gitignore files to ignore files
+ignore_all_files_in_gitignore: true
+
+# advanced configuration option allowing to configure language server-specific options.
+# Maps the language key to the options.
+# Have a look at the docstring of the constructors of the LS implementations within solidlsp (e.g., for C# or PHP) to see which options are available.
+# No documentation on options means no options are available.
+ls_specific_settings: {}
+
+# list of additional paths to ignore in this project.
+# Same syntax as gitignore, so you can use * and **.
+# Note: global ignored_paths from serena_config.yml are also applied additively.
+ignored_paths: []
+
+# whether the project is in read-only mode
+# If set to true, all editing tools will be disabled and attempts to use them will result in an error
+# Added on 2025-04-18
+read_only: false
+
+# list of tool names to exclude.
+# This extends the existing exclusions (e.g. from the global configuration)
+#
+# Below is the complete list of tools for convenience.
+# To make sure you have the latest list of tools, and to view their descriptions, 
+# execute `uv run scripts/print_tool_overview.py`.
+#
+#  * `activate_project`: Activates a project by name.
+#  * `check_onboarding_performed`: Checks whether project onboarding was already performed.
+#  * `create_text_file`: Creates/overwrites a file in the project directory.
+#  * `delete_lines`: Deletes a range of lines within a file.
+#  * `delete_memory`: Deletes a memory from Serena's project-specific memory store.
+#  * `execute_shell_command`: Executes a shell command.
+#  * `find_referencing_code_snippets`: Finds code snippets in which the symbol at the given location is referenced.
+#  * `find_referencing_symbols`: Finds symbols that reference the symbol at the given location (optionally filtered by type).
+#  * `find_symbol`: Performs a global (or local) search for symbols with/containing a given name/substring (optionally filtered by type).
+#  * `get_current_config`: Prints the current configuration of the agent, including the active and available projects, tools, contexts, and modes.
+#  * `get_symbols_overview`: Gets an overview of the top-level symbols defined in a given file.
+#  * `initial_instructions`: Gets the initial instructions for the current project.
+#     Should only be used in settings where the system prompt cannot be set,
+#     e.g. in clients you have no control over, like Claude Desktop.
+#  * `insert_after_symbol`: Inserts content after the end of the definition of a given symbol.
+#  * `insert_at_line`: Inserts content at a given line in a file.
+#  * `insert_before_symbol`: Inserts content before the beginning of the definition of a given symbol.
+#  * `list_dir`: Lists files and directories in the given directory (optionally with recursion).
+#  * `list_memories`: Lists memories in Serena's project-specific memory store.
+#  * `onboarding`: Performs onboarding (identifying the project structure and essential tasks, e.g. for testing or building).
+#  * `prepare_for_new_conversation`: Provides instructions for preparing for a new conversation (in order to continue with the necessary context).
+#  * `read_file`: Reads a file within the project directory.
+#  * `read_memory`: Reads the memory with the given name from Serena's project-specific memory store.
+#  * `remove_project`: Removes a project from the Serena configuration.
+#  * `replace_lines`: Replaces a range of lines within a file with new content.
+#  * `replace_symbol_body`: Replaces the full definition of a symbol.
+#  * `restart_language_server`: Restarts the language server, may be necessary when edits not through Serena happen.
+#  * `search_for_pattern`: Performs a search for a pattern in the project.
+#  * `summarize_changes`: Provides instructions for summarizing the changes made to the codebase.
+#  * `switch_modes`: Activates modes by providing a list of their names
+#  * `think_about_collected_information`: Thinking tool for pondering the completeness of collected information.
+#  * `think_about_task_adherence`: Thinking tool for determining whether the agent is still on track with the current task.
+#  * `think_about_whether_you_are_done`: Thinking tool for determining whether the task is truly completed.
+#  * `write_memory`: Writes a named memory (for future reference) to Serena's project-specific memory store.
+excluded_tools: []
+
+# list of tools to include that would otherwise be disabled (particularly optional tools that are disabled by default).
+# This extends the existing inclusions (e.g. from the global configuration).
+included_optional_tools: []
+
+# fixed set of tools to use as the base tool set (if non-empty), replacing Serena's default set of tools.
+# This cannot be combined with non-empty excluded_tools or included_optional_tools.
+fixed_tools: []
+
+# list of mode names to that are always to be included in the set of active modes
+# The full set of modes to be activated is base_modes + default_modes.
+# If the setting is undefined, the base_modes from the global configuration (serena_config.yml) apply.
+# Otherwise, this setting overrides the global configuration.
+# Set this to [] to disable base modes for this project.
+# Set this to a list of mode names to always include the respective modes for this project.
+base_modes:
+
+# list of mode names that are to be activated by default.
+# The full set of modes to be activated is base_modes + default_modes.
+# If the setting is undefined, the default_modes from the global configuration (serena_config.yml) apply.
+# Otherwise, this overrides the setting from the global configuration (serena_config.yml).
+# This setting can, in turn, be overridden by CLI parameters (--mode).
+default_modes:
+
+# initial prompt for the project. It will always be given to the LLM upon activating the project
+# (contrary to the memories, which are loaded on demand).
+initial_prompt: ""
+
+# time budget (seconds) per tool call for the retrieval of additional symbol information
+# such as docstrings or parameter information.
+# This overrides the corresponding setting in the global configuration; see the documentation there.
+# If null or missing, use the setting from the global configuration.
+symbol_info_budget:
+
+# list of regex patterns which, when matched, mark a memory entry as read‑only.
+# Extends the list from the global configuration, merging the two lists.
+read_only_memory_patterns: []
+
+# list of regex patterns for memories to completely ignore.
+# Matching memories will not appear in list_memories or activate_project output
+# and cannot be accessed via read_memory or write_memory.
+# To access ignored memory files, use the read_file tool on the raw file path.
+# Extends the list from the global configuration, merging the two lists.
+# Example: ["_archive/.*", "_episodes/.*"]
+ignored_memory_patterns: []

default.nix

@@ -7,6 +7,7 @@ let
   };
 
   claudeCode = pkgs.callPackage "${sources.claude-code-nix}/package.nix" { };
+  serena = pkgs.callPackage ./pkgs/serena/package.nix { };
 
   nixosCfg = import "${sources.nixpkgs}/nixos/lib/eval-config.nix" {
     inherit system;
@@ -74,6 +75,7 @@ let
           # packages
           environment.systemPackages = with pkgs; [
             claudeCode
+            serena
             git
             curl
             vim

modules/serena-mcp.nix

@@ -0,0 +1,20 @@
+{ pkgs, ... }:
+
+let
+  serena = pkgs.callPackage ../pkgs/serena/package.nix { };
+in
+{
+  programs.claude-code = {
+    enable = true;
+    mcpServers = {
+      serena = {
+        command = "${serena}/bin/serena-mcp-server";
+        type = "stdio";
+        args = [
+          "--context=claude-code"
+          "--project-from-cwd"
+        ];
+      };
+    };
+  };
+}

pkgs/serena/package.nix

@@ -0,0 +1,78 @@
+{
+  lib,
+  python3Packages,
+  fetchFromGitHub,
+  pyright,
+}:
+# TODO: We can just get this from nixpkgs when merged: https://github.com/NixOS/nixpkgs/pull/506300
+
+python3Packages.buildPythonApplication (finalAttrs: {
+  pname = "serena";
+  version = "0.1.4";
+  pyproject = true;
+
+  disabled = python3Packages.pythonOlder "3.11";
+
+  src = fetchFromGitHub {
+    owner = "oraios";
+    repo = "serena";
+    tag = "v${finalAttrs.version}";
+    hash = "sha256-oj5iaQZa9gKjjaqq/DDT0j5UqVbPjWEztSuaOH24chI=";
+  };
+
+  postPatch = ''
+    # Remove the deprecated dotenv stub package (serena uses python-dotenv)
+    substituteInPlace pyproject.toml \
+      --replace-fail '"dotenv>=0.9.9",' ""
+
+    # Remove pyright from Python dependencies and make it available at runtime
+    # instead
+    substituteInPlace pyproject.toml \
+      --replace-fail '"pyright>=1.1.396,<2",' ""
+  '';
+
+  build-system = [ python3Packages.hatchling ];
+
+  pythonRelaxDeps = [
+    "mcp"
+  ];
+
+  makeWrapperArgs = [
+    "--prefix PATH : ${lib.makeBinPath [ pyright ]}"
+  ];
+
+  dependencies = with python3Packages; [
+    anthropic
+    docstring-parser
+    flask
+    jinja2
+    joblib
+    mcp
+    overrides
+    pathspec
+    psutil
+    pydantic
+    python-dotenv
+    pyyaml
+    requests
+    ruamel-yaml
+    sensai-utils
+    tiktoken
+    tqdm
+    types-pyyaml
+  ];
+
+  optional-dependencies = with python3Packages; {
+    google = [ google-genai ];
+  };
+
+  pythonImportsCheck = [ "serena" ];
+
+  meta = {
+    description = "Coding agent toolkit providing semantic code operations for LLMs via MCP";
+    homepage = "https://github.com/oraios/serena";
+    changelog = "https://github.com/oraios/serena/releases/tag/${finalAttrs.src.tag}";
+    license = lib.licenses.mit;
+    maintainers = with lib.maintainers; [ jpds ];
+  };
+})