dayhoff-tools 1.1.20__tar.gz → 1.1.22__tar.gz

{dayhoff_tools-1.1.20 → dayhoff_tools-1.1.22}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: dayhoff-tools
-Version: 1.1.20
+Version: 1.1.22
 Summary: Common tools for all the repos at Dayhoff Labs
 Author: Daniel Martin-Alarcon
 Author-email: dma@dayhofflabs.com

dayhoff_tools-1.1.22/dayhoff_tools/__init__.py

@@ -0,0 +1,10 @@
+import importlib.metadata
+
+try:
+    # The package name here should match the 'name' field in your pyproject.toml
+    __version__ = importlib.metadata.version("dayhoff-tools")
+except importlib.metadata.PackageNotFoundError:
+    # This is a fallback for when the package might not be installed (e.g., running from source
+    # without installation, or during development). You can set it to None, "unknown",
+    # or handle it as you see fit.
+    __version__ = "unknown"

{dayhoff_tools-1.1.20 → dayhoff_tools-1.1.22}/dayhoff_tools/cli/utility_commands.py

@@ -465,16 +465,7 @@ def install_dependencies(
             print(f"Running command: {BLUE}{' '.join(pip_install_cmd)}{RESET}")
             subprocess.run(pip_install_cmd, check=True)
 
-            # Step 2b: Sync other dependency groups (e.g., dev)
-            # We use --no-install-project here because the project itself was just installed.
-            # --all-groups will ensure other groups like 'dev' are synced.
-            print("Syncing other dependency groups (e.g., dev)...")
-            sync_cmd = ["uv", "sync", "--all-groups", "--no-install-project"]
-            print(f"Running command: {BLUE}{' '.join(sync_cmd)}{RESET}")
-            subprocess.run(sync_cmd, check=True)
-            print(
-                "Project installed with 'full' extras and other dependency groups synced successfully."
-            )
+            print("Project installed with 'full' extras successfully.")
         else:
             # Original behavior: Sync environment without installing the project
             print(
@@ -582,13 +573,16 @@ def update_dependencies(
             print(f"Updating {pyproject_path} version constraint...")
             try:
                 content = pyproject_path.read_text()
+                package_name_re = re.escape(
+                    "dayhoff-tools"
+                )  # Use the actual package name
                 pattern = re.compile(
-                    "^(\s*['\"])dayhoff-tools(?:[><=~^][^'\"\[,]*)?(['\"].*)$",  # Match rest of line
+                    rf"^(\\s*['\"])({package_name_re})(\\[[^\\]]+\\])?(?:[^'\"[\,\\s]*)?(['\"].*)$",
                     re.MULTILINE,
                 )
-                package_name = "dayhoff-tools"
+                # package_name variable is still 'dayhoff-tools'
                 new_constraint_text = f">={locked_version}"
-                replacement_string = f"\g<1>{package_name}{new_constraint_text}\g<2>"
+                replacement_string = rf"\\g<1>\\g<2>\\g<3>{new_constraint_text}\\g<4>"
                 new_content, num_replacements = pattern.subn(
                     replacement_string, content
                 )

{dayhoff_tools-1.1.20 → dayhoff_tools-1.1.22}/dayhoff_tools/deployment/processors.py

@@ -175,6 +175,10 @@ class MMSeqsProfileProcessor(Processor):
         else:
             self.mmseqs_args = default_mmseqs_args
 
+        # Log dayhoff-tools version
+        from dayhoff_tools import __version__
+
+        logger.info(f"dayhoff-tools version: {__version__}")
         logger.info(
             f"MMSeqsProfileProcessor initialized with query: {self.query_fasta_path}"
         )

{dayhoff_tools-1.1.20 → dayhoff_tools-1.1.22}/dayhoff_tools/deployment/swarm.py

@@ -439,6 +439,11 @@ class Operator:
         - For AWS spot instances, uses IMDSv2 to check instance-action metadata
         - For GCP preemptible VMs, checks both maintenance-event and preempted metadata
         """
+        logger.info(
+            "DEBUG: _check_for_termination has been temporarily disabled for testing."
+        )
+        return  # DEBUG: Temporarily disable to test if this is causing premature shutdown
+
         while not _shutdown_requested.is_set():
             try:
                 # Check AWS spot termination using IMDSv2 (token-based auth)

{dayhoff_tools-1.1.20 → dayhoff_tools-1.1.22}/pyproject.toml

@@ -5,7 +5,7 @@ build-backend = "poetry.core.masonry.api"
 
 [project]
 name = "dayhoff-tools"
-version = "1.1.20"
+version = "1.1.22"
 description = "Common tools for all the repos at Dayhoff Labs"
 authors = [
     {name = "Daniel Martin-Alarcon", email = "dma@dayhofflabs.com"}