Ensure git-lfs is installed whenever repo is used.

cadetrdm/initialize_repo.py

@@ -11,7 +11,6 @@ except ImportError:
 
 import cadetrdm
 from cadetrdm.repositories import ProjectRepo, OutputRepo
-from cadetrdm.web_utils import ssh_url_to_http_url
 from cadetrdm.io_utils import write_lines_to_file, is_tool, wait_for_user, init_lfs
 
 
@@ -33,11 +32,7 @@ def initialize_repo(path_to_repo: str | Path, output_folder_name: (str | bool) =
         Include gitignore, gitattributes, and lfs_filetypes kwargs.
     :return:
     """
-    if not is_tool("git-lfs"):
-        raise RuntimeError("Git LFS is not installed. Please install it via e.g. apt-get install git-lfs or the "
-                           "instructions found below \n"
-                           "https://docs.github.com/en/repositories/working-with-files"
-                           "/managing-large-files/installing-git-large-file-storage")
+    test_for_lfs()
 
     if gitignore is None:
         gitignore = get_default_gitignore() + ["*.ipynb"]
@@ -109,6 +104,14 @@ def initialize_repo(path_to_repo: str | Path, output_folder_name: (str | bool) =
     os.chdir(starting_directory)
 
 
+def test_for_lfs():
+    if not is_tool("git-lfs"):
+        raise RuntimeError("Git LFS is not installed. Please install it via e.g. apt-get install git-lfs or the "
+                           "instructions found below \n"
+                           "https://docs.github.com/en/repositories/working-with-files"
+                           "/managing-large-files/installing-git-large-file-storage")
+
+
 def initialize_git(folder="."):
     starting_directory = os.getcwd()
     if folder != ":":

cadetrdm/repositories.py

@@ -5,12 +5,14 @@ import os
 import shutil
 import sys
 import traceback
+import warnings
 from datetime import datetime
 from pathlib import Path
 from stat import S_IREAD, S_IWRITE
 from urllib.request import urlretrieve
 
 import cadetrdm
+from cadetrdm.initialize_repo import test_for_lfs
 from cadetrdm.io_utils import delete_path
 from cadetrdm.io_utils import recursive_chmod, write_lines_to_file, wait_for_user, init_lfs
 from cadetrdm.jupyter_functionality import Notebook
@@ -627,6 +629,8 @@ class ProjectRepo(BaseRepo):
         """
         super().__init__(repository_path, search_parent_directories=search_parent_directories, *args, **kwargs)
 
+        test_for_lfs()
+
         if output_folder is not None:
             print("Deprecation Warning. Setting the outputfolder manually during repo instantiation is deprecated"
                   " and will be removed in a future update.")
@@ -635,7 +639,8 @@ class ProjectRepo(BaseRepo):
             raise RuntimeError(f"Folder {self.path} does not appear to be a CADET-RDM repository.")
 
         metadata = self.load_metadata()
-
+        self._project_uuid = metadata["project_uuid"]
+        self._output_uuid = metadata["output_uuid"]
         self._output_folder = metadata["output_remotes"]["output_folder_name"]
         if not (self.path / self._output_folder).exists():
             print("Output repository was missing, cloning now.")
@@ -698,7 +703,7 @@ class ProjectRepo(BaseRepo):
         ssh_remotes = list(output_remotes["output_remotes"].values())
         http_remotes = [ssh_url_to_http_url(url) for url in ssh_remotes]
         if len(ssh_remotes + http_remotes) == 0:
-            raise RuntimeError("No output remotes configured in .cadet-rdm-data.json")
+            warnings.warn("No output remotes configured in .cadet-rdm-data.json")
         for output_remote in ssh_remotes + http_remotes:
             try:
                 print(f"Attempting to clone {output_remote} into {output_path}")