Revert "clan-cli: deprecate nix_shell() in favor of run_cmd()"

This reverts commit a598b878a5.

pkgs/clan-cli/clan_cli/facts/generate.py

@@ -19,7 +19,7 @@ from ..errors import ClanError
 from ..git import commit_files
 from ..machines.inventory import get_all_machines, get_selected_machines
 from ..machines.machines import Machine
-from ..nix import run_cmd
+from ..nix import nix_shell
 from .check import check_secrets
 from .public_modules import FactStoreBase
 from .secret_modules import SecretStoreBase
@@ -39,10 +39,10 @@ def read_multiline_input(prompt: str = "Finish with Ctrl-D") -> str:
 
 def bubblewrap_cmd(generator: str, facts_dir: Path, secrets_dir: Path) -> list[str]:
     # fmt: off
-    return run_cmd(
+    return nix_shell(
         [
-            "bash",
-            "bubblewrap",
+            "nixpkgs#bash",
+            "nixpkgs#bubblewrap",
         ],
         [
             "bwrap",

pkgs/clan-cli/clan_cli/facts/secret_modules/password_store.py

@@ -3,7 +3,7 @@ import subprocess
 from pathlib import Path
 
 from clan_cli.machines.machines import Machine
-from clan_cli.nix import run_cmd
+from clan_cli.nix import nix_shell
 
 from . import SecretStoreBase
 
@@ -16,8 +16,8 @@ class SecretStore(SecretStoreBase):
         self, service: str, name: str, value: bytes, groups: list[str]
     ) -> Path | None:
         subprocess.run(
-            run_cmd(
-                ["pass"],
+            nix_shell(
+                ["nixpkgs#pass"],
                 ["pass", "insert", "-m", f"machines/{self.machine.name}/{name}"],
             ),
             input=value,
@@ -27,8 +27,8 @@ class SecretStore(SecretStoreBase):
 
     def get(self, service: str, name: str) -> bytes:
         return subprocess.run(
-            run_cmd(
-                ["pass"],
+            nix_shell(
+                ["nixpkgs#pass"],
                 ["pass", "show", f"machines/{self.machine.name}/{name}"],
             ),
             check=True,
@@ -49,8 +49,8 @@ class SecretStore(SecretStoreBase):
         hashes = []
         hashes.append(
             subprocess.run(
-                run_cmd(
-                    ["git"],
+                nix_shell(
+                    ["nixpkgs#git"],
                     [
                         "git",
                         "-C",
@@ -68,8 +68,8 @@ class SecretStore(SecretStoreBase):
             if symlink.is_symlink():
                 hashes.append(
                     subprocess.run(
-                        run_cmd(
-                            ["git"],
+                        nix_shell(
+                            ["nixpkgs#git"],
                             [
                                 "git",
                                 "-C",

pkgs/clan-cli/clan_cli/facts/upload.py

@@ -7,7 +7,7 @@ from tempfile import TemporaryDirectory
 from ..cmd import Log, run
 from ..completions import add_dynamic_completer, complete_machines
 from ..machines.machines import Machine
-from ..nix import run_cmd
+from ..nix import nix_shell
 
 log = logging.getLogger(__name__)
 
@@ -25,8 +25,8 @@ def upload_secrets(machine: Machine) -> None:
 
         ssh_cmd = host.ssh_cmd()
         run(
-            run_cmd(
-                ["rsync"],
+            nix_shell(
+                ["nixpkgs#rsync"],
                 [
                     "rsync",
                     "-e",