Make apply_patch preserve line endings unconditionally (#51203)

## Why

Updating a CRLF file with `apply_patch` previously normalized its line endings to LF unless preservation was explicitly enabled. Preserve the file's existing line endings without requiring an opt-in.

## What changed

- Use line-ending-preserving updates for both tool calls and standalone `apply_patch` invocations, removing the legacy normalization mode.
- Mark `apply_patch_preserve_line_endings` as removed.
- Always set `CODEX_APPLY_PATCH_PRESERVE_LINE_ENDINGS=1` in child environments for compatibility with older patch executables, overriding stale values.

## Testing

Update CLI, tool-call, shell-heredoc, and app-server tests to check CRLF preservation by default. Keep coverage for overriding stale compatibility environment values.

GitOrigin-RevId: 96d0b0e5350faa3fc7a45d63627a132657b44523

codex-rs/apply-patch/src/standalone_executable.rs

@@ -67,13 +67,8 @@ pub fn run_main() -> i32 {
     };
     // TODO(anp): Discover the standalone executable cwd as PathUri directly.
     let cwd = codex_utils_path_uri::PathUri::from_abs_path(&cwd);
-    let update_file_mode = crate::apply_patch_file_update_mode_from_env();
-    match runtime.block_on(crate::apply_patch_with_options(
+    match runtime.block_on(crate::apply_patch(
         &patch_arg,
-        crate::ApplyPatchOptions {
-            update_file_mode,
-            ..Default::default()
-        },
         &cwd,
         &mut stdout,
         &mut stderr,