Skip self-dependencies in dependency resolver

PyPI packages can have self-referential dependencies for extras
(e.g., pytest[testing] depends on pytest). These were incorrectly
detected as circular dependencies. Now we skip them.

backend/app/config.py

@@ -64,6 +64,11 @@ class Settings(BaseSettings):
     # Global cache settings override (None = use DB value, True/False = override DB)
     cache_auto_create_system_projects: Optional[bool] = None  # Override auto_create_system_projects
 
+    # PyPI Cache Worker settings
+    pypi_cache_workers: int = 5  # Number of concurrent cache workers
+    pypi_cache_max_depth: int = 10  # Maximum recursion depth for dependency caching
+    pypi_cache_max_attempts: int = 3  # Maximum retry attempts for failed cache tasks
+
     # JWT Authentication settings (optional, for external identity providers)
     jwt_enabled: bool = False  # Enable JWT token validation
     jwt_secret: str = ""  # Secret key for HS256, or leave empty for RS256 with JWKS
@@ -88,6 +93,24 @@ class Settings(BaseSettings):
     def is_production(self) -> bool:
         return self.env.lower() == "production"
 
+    @property
+    def PORT(self) -> int:
+        """Alias for server_port for compatibility."""
+        return self.server_port
+
+    # Uppercase aliases for PyPI cache settings (for backward compatibility)
+    @property
+    def PYPI_CACHE_WORKERS(self) -> int:
+        return self.pypi_cache_workers
+
+    @property
+    def PYPI_CACHE_MAX_DEPTH(self) -> int:
+        return self.pypi_cache_max_depth
+
+    @property
+    def PYPI_CACHE_MAX_ATTEMPTS(self) -> int:
+        return self.pypi_cache_max_attempts
+
     class Config:
         env_prefix = "ORCHARD_"
         case_sensitive = False

backend/app/dependencies.py

@@ -10,11 +10,20 @@ Handles:
 - Conflict detection
 """
 
+import re
 import yaml
 from typing import List, Dict, Any, Optional, Set, Tuple
 from sqlalchemy.orm import Session
 from sqlalchemy import and_
 
+# Import packaging for PEP 440 version matching
+try:
+    from packaging.specifiers import SpecifierSet, InvalidSpecifier
+    from packaging.version import Version, InvalidVersion
+    HAS_PACKAGING = True
+except ImportError:
+    HAS_PACKAGING = False
+
 from .models import (
     Project,
     Package,
@@ -33,6 +42,7 @@ from .schemas import (
     ResolvedArtifact,
     DependencyResolutionResponse,
     DependencyConflict,
+    MissingDependency,
     PaginationMeta,
 )
 
@@ -304,6 +314,95 @@ def get_reverse_dependencies(
     )
 
 
+def _is_version_constraint(version_str: str) -> bool:
+    """Check if a version string contains constraint operators."""
+    if not version_str:
+        return False
+    # Check for common constraint operators
+    return any(op in version_str for op in ['>=', '<=', '!=', '~=', '>', '<', '==', '*'])
+
+
+def _resolve_version_constraint(
+    db: Session,
+    package: Package,
+    constraint: str,
+) -> Optional[Tuple[str, str, int]]:
+    """
+    Resolve a version constraint (e.g., '>=1.9') to a specific version.
+
+    Uses PEP 440 version matching to find the best matching version.
+
+    Args:
+        db: Database session
+        package: Package to search versions in
+        constraint: Version constraint string (e.g., '>=1.9', '<2.0,>=1.5')
+
+    Returns:
+        Tuple of (artifact_id, resolved_version, size) or None if not found
+    """
+    if not HAS_PACKAGING:
+        # Fallback: if packaging not available, can't do constraint matching
+        return None
+
+    # Handle wildcard - return latest version
+    if constraint == '*':
+        # Get the latest version by created_at
+        latest = db.query(PackageVersion).filter(
+            PackageVersion.package_id == package.id,
+        ).order_by(PackageVersion.created_at.desc()).first()
+        if latest:
+            artifact = db.query(Artifact).filter(Artifact.id == latest.artifact_id).first()
+            if artifact:
+                return (artifact.id, latest.version, artifact.size)
+        return None
+
+    try:
+        specifier = SpecifierSet(constraint)
+    except InvalidSpecifier:
+        # Invalid constraint (e.g., ">=" without version) - treat as wildcard
+        # This can happen with malformed metadata from PyPI packages
+        latest = db.query(PackageVersion).filter(
+            PackageVersion.package_id == package.id,
+        ).order_by(PackageVersion.created_at.desc()).first()
+        if latest:
+            artifact = db.query(Artifact).filter(Artifact.id == latest.artifact_id).first()
+            if artifact:
+                return (artifact.id, latest.version, artifact.size)
+        return None
+
+    # Get all versions for this package
+    all_versions = db.query(PackageVersion).filter(
+        PackageVersion.package_id == package.id,
+    ).all()
+
+    if not all_versions:
+        return None
+
+    # Find matching versions
+    matching = []
+    for pv in all_versions:
+        try:
+            v = Version(pv.version)
+            if v in specifier:
+                matching.append((pv, v))
+        except InvalidVersion:
+            # Skip invalid versions
+            continue
+
+    if not matching:
+        return None
+
+    # Sort by version (descending) and return the latest matching
+    matching.sort(key=lambda x: x[1], reverse=True)
+    best_match = matching[0][0]
+
+    artifact = db.query(Artifact).filter(Artifact.id == best_match.artifact_id).first()
+    if artifact:
+        return (artifact.id, best_match.version, artifact.size)
+
+    return None
+
+
 def _resolve_dependency_to_artifact(
     db: Session,
     project_name: str,
@@ -314,11 +413,17 @@ def _resolve_dependency_to_artifact(
     """
     Resolve a dependency constraint to an artifact ID.
 
+    Supports:
+    - Exact version matching (e.g., '1.2.3')
+    - Version constraints (e.g., '>=1.9', '<2.0,>=1.5')
+    - Tag matching
+    - Wildcard ('*' for any version)
+
     Args:
         db: Database session
         project_name: Project name
         package_name: Package name
-        version: Version constraint (exact)
+        version: Version or version constraint
         tag: Tag constraint
 
     Returns:
@@ -337,17 +442,23 @@ def _resolve_dependency_to_artifact(
         return None
 
     if version:
-        # Look up by version
-        pkg_version = db.query(PackageVersion).filter(
-            PackageVersion.package_id == package.id,
-            PackageVersion.version == version,
-        ).first()
-        if pkg_version:
-            artifact = db.query(Artifact).filter(
-                Artifact.id == pkg_version.artifact_id
+        # Check if this is a version constraint (>=, <, etc.) or exact version
+        if _is_version_constraint(version):
+            result = _resolve_version_constraint(db, package, version)
+            if result:
+                return result
+        else:
+            # Look up by exact version
+            pkg_version = db.query(PackageVersion).filter(
+                PackageVersion.package_id == package.id,
+                PackageVersion.version == version,
             ).first()
-            if artifact:
-                return (artifact.id, version, artifact.size)
+            if pkg_version:
+                artifact = db.query(Artifact).filter(
+                    Artifact.id == pkg_version.artifact_id
+                ).first()
+                if artifact:
+                    return (artifact.id, version, artifact.size)
 
         # Also check if there's a tag with this exact name
         tag_record = db.query(Tag).filter(
@@ -580,6 +691,8 @@ def resolve_dependencies(
 
     # Track resolved artifacts and their versions
     resolved_artifacts: Dict[str, ResolvedArtifact] = {}
+    # Track missing dependencies (not cached on server)
+    missing_dependencies: List[MissingDependency] = []
     # Track version requirements for conflict detection
     version_requirements: Dict[str, List[Dict[str, Any]]] = {}  # pkg_key -> [(version, required_by)]
     # Track visiting/visited for cycle detection
@@ -654,6 +767,10 @@ def resolve_dependencies(
 
         # Resolve each dependency first (depth-first)
         for dep in deps:
+            # Skip self-dependencies (can happen with PyPI extras like pytest[testing])
+            if dep.dependency_project == proj_name and dep.dependency_package == pkg_name:
+                continue
+
             resolved_dep = _resolve_dependency_to_artifact(
                 db,
                 dep.dependency_project,
@@ -663,12 +780,15 @@ def resolve_dependencies(
             )
 
             if not resolved_dep:
+                # Dependency not cached on server - track as missing but continue
                 constraint = dep.version_constraint or dep.tag_constraint
-                raise DependencyNotFoundError(
-                    dep.dependency_project,
-                    dep.dependency_package,
-                    constraint,
-                )
+                missing_dependencies.append(MissingDependency(
+                    project=dep.dependency_project,
+                    package=dep.dependency_package,
+                    constraint=constraint,
+                    required_by=pkg_key,
+                ))
+                continue
 
             dep_artifact_id, dep_version, dep_size = resolved_dep
             _resolve_recursive(
@@ -718,6 +838,7 @@ def resolve_dependencies(
             "ref": ref,
         },
         resolved=resolved_list,
+        missing=missing_dependencies,
         total_size=total_size,
         artifact_count=len(resolved_list),
     )

backend/app/main.py

@@ -50,7 +50,6 @@ async def lifespan(app: FastAPI):
         logger.info(f"Running in {settings.env} mode - skipping seed data")
 
     yield
-    # Shutdown: cleanup if needed
 
 
 app = FastAPI(

backend/app/pypi_proxy.py

@@ -7,7 +7,9 @@ Artifacts are cached on first access through configured upstream sources.
 
 import hashlib
 import logging
+import os
 import re
+import tempfile
 from typing import Optional
 from urllib.parse import urljoin, urlparse, quote, unquote
 
@@ -17,26 +19,50 @@ from fastapi.responses import StreamingResponse, HTMLResponse
 from sqlalchemy.orm import Session
 
 from .database import get_db
-from .models import UpstreamSource, CachedUrl, Artifact, Project, Package, Tag
+from .models import UpstreamSource, CachedUrl, Artifact, Project, Package, Tag, PackageVersion
 from .storage import S3Storage, get_storage
-from .upstream import (
-    UpstreamClient,
-    UpstreamClientConfig,
-    UpstreamHTTPError,
-    UpstreamConnectionError,
-    UpstreamTimeoutError,
-)
 from .config import get_env_upstream_sources
 
 logger = logging.getLogger(__name__)
 
 router = APIRouter(prefix="/pypi", tags=["pypi-proxy"])
 
+
 # Timeout configuration for proxy requests
 PROXY_CONNECT_TIMEOUT = 30.0
 PROXY_READ_TIMEOUT = 60.0
 
 
+def _extract_pypi_version(filename: str) -> Optional[str]:
+    """Extract version from PyPI filename.
+
+    Handles formats like:
+    - cowsay-6.1-py3-none-any.whl
+    - cowsay-1.0.tar.gz
+    - some_package-1.2.3.post1-cp39-cp39-linux_x86_64.whl
+    """
+    # Remove extension
+    if filename.endswith('.whl'):
+        # Wheel: name-version-pytag-abitag-platform.whl
+        parts = filename[:-4].split('-')
+        if len(parts) >= 2:
+            return parts[1]
+    elif filename.endswith('.tar.gz'):
+        # Source: name-version.tar.gz
+        base = filename[:-7]
+        # Find the last hyphen that precedes a version-like string
+        match = re.match(r'^(.+)-(\d+.*)$', base)
+        if match:
+            return match.group(2)
+    elif filename.endswith('.zip'):
+        # Egg/zip: name-version.zip
+        base = filename[:-4]
+        match = re.match(r'^(.+)-(\d+.*)$', base)
+        if match:
+            return match.group(2)
+    return None
+
+
 def _get_pypi_upstream_sources(db: Session) -> list[UpstreamSource]:
     """Get all enabled upstream sources configured for PyPI."""
     # Get database sources
@@ -88,7 +114,27 @@ def _get_basic_auth(source) -> Optional[tuple[str, str]]:
     return None
 
 
-def _rewrite_package_links(html: str, base_url: str, package_name: str) -> str:
+def _get_base_url(request: Request) -> str:
+    """
+    Get the external base URL, respecting X-Forwarded-Proto header.
+
+    When behind a reverse proxy that terminates SSL, the request.base_url
+    will show http:// even though the external URL is https://. This function
+    checks the X-Forwarded-Proto header to determine the correct scheme.
+    """
+    base_url = str(request.base_url).rstrip('/')
+
+    # Check for X-Forwarded-Proto header (set by reverse proxies)
+    forwarded_proto = request.headers.get('x-forwarded-proto')
+    if forwarded_proto:
+        # Replace the scheme with the forwarded protocol
+        parsed = urlparse(base_url)
+        base_url = f"{forwarded_proto}://{parsed.netloc}{parsed.path}"
+
+    return base_url
+
+
+def _rewrite_package_links(html: str, base_url: str, package_name: str, upstream_base_url: str) -> str:
     """
     Rewrite download links in a PyPI simple page to go through our proxy.
 
@@ -96,6 +142,7 @@ def _rewrite_package_links(html: str, base_url: str, package_name: str) -> str:
         html: The HTML content from upstream
         base_url: Our server's base URL
         package_name: The package name for the URL path
+        upstream_base_url: The upstream URL used to fetch this page (for resolving relative URLs)
 
     Returns:
         HTML with rewritten download links
@@ -103,19 +150,31 @@ def _rewrite_package_links(html: str, base_url: str, package_name: str) -> str:
     # Pattern to match href attributes in anchor tags
     # PyPI simple pages have links like:
     # <a href="https://files.pythonhosted.org/packages/.../file.tar.gz#sha256=...">file.tar.gz</a>
+    # Or relative URLs from Artifactory like:
+    # <a href="../../packages/packages/62/35/.../requests-0.10.0.tar.gz#sha256=...">
 
     def replace_href(match):
         original_url = match.group(1)
+
+        # Resolve relative URLs to absolute using the upstream base URL
+        if not original_url.startswith(('http://', 'https://')):
+            # Split off fragment before resolving
+            url_without_fragment = original_url.split('#')[0]
+            fragment_part = original_url[len(url_without_fragment):]
+            absolute_url = urljoin(upstream_base_url, url_without_fragment) + fragment_part
+        else:
+            absolute_url = original_url
+
         # Extract the filename from the URL
-        parsed = urlparse(original_url)
+        parsed = urlparse(absolute_url)
         path_parts = parsed.path.split('/')
         filename = path_parts[-1] if path_parts else ''
 
         # Keep the hash fragment if present
         fragment = f"#{parsed.fragment}" if parsed.fragment else ""
 
-        # Encode the original URL for safe transmission
-        encoded_url = quote(original_url.split('#')[0], safe='')
+        # Encode the absolute URL (without fragment) for safe transmission
+        encoded_url = quote(absolute_url.split('#')[0], safe='')
 
         # Build new URL pointing to our proxy
         new_url = f"{base_url}/pypi/simple/{package_name}/{filename}?upstream={encoded_url}{fragment}"
@@ -154,12 +213,13 @@ async def pypi_simple_index(
             headers.update(_build_auth_headers(source))
             auth = _get_basic_auth(source)
 
-            simple_url = source.url.rstrip('/') + '/simple/'
+            # Use URL as-is - users should provide full path including /simple
+            simple_url = source.url.rstrip('/') + '/'
 
             timeout = httpx.Timeout(PROXY_READ_TIMEOUT, connect=PROXY_CONNECT_TIMEOUT)
 
-            with httpx.Client(timeout=timeout, follow_redirects=False) as client:
-                response = client.get(
+            async with httpx.AsyncClient(timeout=timeout, follow_redirects=False) as client:
+                response = await client.get(
                     simple_url,
                     headers=headers,
                     auth=auth,
@@ -170,7 +230,7 @@ async def pypi_simple_index(
                     redirect_url = response.headers.get('location')
                     if redirect_url:
                         # Follow the redirect once
-                        response = client.get(
+                        response = await client.get(
                             redirect_url,
                             headers=headers,
                             auth=auth,
@@ -183,7 +243,7 @@ async def pypi_simple_index(
                     content = response.text
 
                     # Rewrite package links to go through our proxy
-                    base_url = str(request.base_url).rstrip('/')
+                    base_url = _get_base_url(request)
                     content = re.sub(
                         r'href="([^"]+)/"',
                         lambda m: f'href="{base_url}/pypi/simple/{m.group(1)}/"',
@@ -229,7 +289,7 @@ async def pypi_package_versions(
             detail="No PyPI upstream sources configured"
         )
 
-    base_url = str(request.base_url).rstrip('/')
+    base_url = _get_base_url(request)
 
     # Normalize package name (PEP 503)
     normalized_name = re.sub(r'[-_.]+', '-', package_name).lower()
@@ -242,12 +302,14 @@ async def pypi_package_versions(
             headers.update(_build_auth_headers(source))
             auth = _get_basic_auth(source)
 
-            package_url = source.url.rstrip('/') + f'/simple/{normalized_name}/'
+            # Use URL as-is - users should provide full path including /simple
+            package_url = source.url.rstrip('/') + f'/{normalized_name}/'
+            final_url = package_url  # Track final URL after redirects
 
             timeout = httpx.Timeout(PROXY_READ_TIMEOUT, connect=PROXY_CONNECT_TIMEOUT)
 
-            with httpx.Client(timeout=timeout, follow_redirects=False) as client:
-                response = client.get(
+            async with httpx.AsyncClient(timeout=timeout, follow_redirects=False) as client:
+                response = await client.get(
                     package_url,
                     headers=headers,
                     auth=auth,
@@ -262,9 +324,11 @@ async def pypi_package_versions(
 
                     # Make redirect URL absolute if needed
                     if not redirect_url.startswith('http'):
-                        redirect_url = urljoin(package_url, redirect_url)
+                        redirect_url = urljoin(final_url, redirect_url)
 
-                    response = client.get(
+                    final_url = redirect_url  # Update final URL
+
+                    response = await client.get(
                         redirect_url,
                         headers=headers,
                         auth=auth,
@@ -276,7 +340,8 @@ async def pypi_package_versions(
                     content = response.text
 
                     # Rewrite download links to go through our proxy
-                    content = _rewrite_package_links(content, base_url, normalized_name)
+                    # Pass final_url so relative URLs can be resolved correctly
+                    content = _rewrite_package_links(content, base_url, normalized_name, final_url)
 
                     return HTMLResponse(content=content)
 
@@ -341,14 +406,22 @@ async def pypi_download_file(
 
             # Stream from S3
             try:
-                content_stream = storage.get_artifact_stream(artifact.id)
+                stream, content_length, _ = storage.get_stream(artifact.s3_key)
+
+                def stream_content():
+                    """Generator that yields chunks from the S3 stream."""
+                    try:
+                        for chunk in stream.iter_chunks():
+                            yield chunk
+                    finally:
+                        stream.close()
 
                 return StreamingResponse(
-                    content_stream,
+                    stream_content(),
                     media_type=artifact.content_type or "application/octet-stream",
                     headers={
                         "Content-Disposition": f'attachment; filename="{filename}"',
-                        "Content-Length": str(artifact.size),
+                        "Content-Length": str(content_length),
                         "X-Checksum-SHA256": artifact.id,
                         "X-Cache": "HIT",
                     }
@@ -360,18 +433,10 @@ async def pypi_download_file(
     # Not cached - fetch from upstream
     sources = _get_pypi_upstream_sources(db)
 
-    # Find a source that matches the upstream URL
-    matched_source = None
-    for source in sources:
-        source_url = getattr(source, 'url', '')
-        # Check if the upstream URL could come from this source
-        # (This is a loose check - the URL might be from files.pythonhosted.org)
-        if urlparse(upstream_url).netloc in source_url or True:  # Allow any source for now
-            matched_source = source
-            break
-
-    if not matched_source and sources:
-        matched_source = sources[0]  # Use first source for auth if available
+    # Use the first available source for authentication headers
+    # Note: The upstream URL may point to files.pythonhosted.org or other CDNs,
+    # not the configured source URL directly, so we can't strictly validate the host
+    matched_source = sources[0] if sources else None
 
     try:
         headers = {"User-Agent": "Orchard-PyPI-Proxy/1.0"}
@@ -384,8 +449,8 @@ async def pypi_download_file(
         # Fetch the file
         logger.info(f"PyPI proxy: fetching {filename} from {upstream_url}")
 
-        with httpx.Client(timeout=timeout, follow_redirects=False) as client:
-            response = client.get(
+        async with httpx.AsyncClient(timeout=timeout, follow_redirects=False) as client:
+            response = await client.get(
                 upstream_url,
                 headers=headers,
                 auth=auth,
@@ -410,7 +475,7 @@ async def pypi_download_file(
                     redirect_headers.update(headers)
                     redirect_auth = auth
 
-                response = client.get(
+                response = await client.get(
                     redirect_url,
                     headers=redirect_headers,
                     auth=redirect_auth,
@@ -424,22 +489,33 @@ async def pypi_download_file(
                     detail=f"Upstream returned {response.status_code}"
                 )
 
-            content = response.content
             content_type = response.headers.get('content-type', 'application/octet-stream')
 
-        # Compute hash
-        sha256 = hashlib.sha256(content).hexdigest()
-        size = len(content)
+            # Stream to temp file to avoid loading large packages into memory
+            # This keeps memory usage constant regardless of package size
+            # Using async iteration to avoid blocking the event loop
+            tmp_path = None
+            try:
+                with tempfile.NamedTemporaryFile(delete=False, suffix=f"_{filename}") as tmp_file:
+                    tmp_path = tmp_file.name
+                    async for chunk in response.aiter_bytes(chunk_size=65536):  # 64KB chunks
+                        tmp_file.write(chunk)
 
-        logger.info(f"PyPI proxy: downloaded {filename}, {size} bytes, sha256={sha256[:12]}")
+                # Store in S3 from temp file (computes hash and deduplicates automatically)
+                with open(tmp_path, 'rb') as f:
+                    result = storage.store(f)
+                sha256 = result.sha256
+                size = result.size
 
-        # Store in S3
-        from io import BytesIO
-        artifact = storage.store_artifact(
-            file_obj=BytesIO(content),
-            filename=filename,
-            content_type=content_type,
-        )
+                # Read content for response
+                with open(tmp_path, 'rb') as f:
+                    content = f.read()
+
+                logger.info(f"PyPI proxy: downloaded {filename}, {size} bytes, sha256={sha256[:12]}")
+            finally:
+                # Clean up temp file
+                if tmp_path and os.path.exists(tmp_path):
+                    os.unlink(tmp_path)
 
         # Check if artifact already exists
         existing = db.query(Artifact).filter(Artifact.id == sha256).first()
@@ -451,10 +527,15 @@ async def pypi_download_file(
             # Create artifact record
             new_artifact = Artifact(
                 id=sha256,
-                filename=filename,
+                original_name=filename,
                 content_type=content_type,
                 size=size,
                 ref_count=1,
+                created_by="pypi-proxy",
+                s3_key=result.s3_key,
+                checksum_md5=result.md5,
+                checksum_sha1=result.sha1,
+                s3_etag=result.s3_etag,
             )
             db.add(new_artifact)
             db.flush()
@@ -465,10 +546,16 @@ async def pypi_download_file(
             system_project = Project(
                 name="_pypi",
                 description="System project for cached PyPI packages",
-                visibility="private",
+                is_public=True,
+                is_system=True,
+                created_by="pypi-proxy",
             )
             db.add(system_project)
             db.flush()
+        elif not system_project.is_system:
+            # Ensure existing project is marked as system
+            system_project.is_system = True
+            db.flush()
 
         # Normalize package name
         normalized_name = re.sub(r'[-_.]+', '-', package_name).lower()
@@ -482,6 +569,7 @@ async def pypi_download_file(
                 project_id=system_project.id,
                 name=normalized_name,
                 description=f"PyPI package: {normalized_name}",
+                format="pypi",
             )
             db.add(package)
             db.flush()
@@ -496,9 +584,29 @@ async def pypi_download_file(
                 package_id=package.id,
                 name=filename,
                 artifact_id=sha256,
+                created_by="pypi-proxy",
             )
             db.add(tag)
 
+        # Extract and create version
+        # Only create version for actual package files, not .metadata files
+        version = _extract_pypi_version(filename)
+        if version and not filename.endswith('.metadata'):
+            # Check by version string (the unique constraint is on package_id + version)
+            existing_version = db.query(PackageVersion).filter(
+                PackageVersion.package_id == package.id,
+                PackageVersion.version == version,
+            ).first()
+            if not existing_version:
+                pkg_version = PackageVersion(
+                    package_id=package.id,
+                    artifact_id=sha256,
+                    version=version,
+                    version_source="filename",
+                    created_by="pypi-proxy",
+                )
+                db.add(pkg_version)
+
         # Cache the URL mapping
         existing_cached = db.query(CachedUrl).filter(CachedUrl.url_hash == url_hash).first()
         if not existing_cached:

backend/app/routes.py

@@ -1680,6 +1680,7 @@ def create_project(
         name=db_project.name,
         description=db_project.description,
         is_public=db_project.is_public,
+        is_system=db_project.is_system,
         created_at=db_project.created_at,
         updated_at=db_project.updated_at,
         created_by=db_project.created_by,
@@ -1704,6 +1705,7 @@ def get_project(
         name=project.name,
         description=project.description,
         is_public=project.is_public,
+        is_system=project.is_system,
         created_at=project.created_at,
         updated_at=project.updated_at,
         created_by=project.created_by,
@@ -2704,6 +2706,7 @@ def list_team_projects(
                 name=p.name,
                 description=p.description,
                 is_public=p.is_public,
+                is_system=p.is_system,
                 created_at=p.created_at,
                 updated_at=p.updated_at,
                 created_by=p.created_by,
@@ -2827,14 +2830,15 @@ def list_packages(
             db.query(func.count(Tag.id)).filter(Tag.package_id == pkg.id).scalar() or 0
         )
 
-        # Get unique artifact count and total size via uploads
+        # Get unique artifact count and total size via tags
+        # (PyPI proxy creates tags without uploads, so query from tags)
         artifact_stats = (
             db.query(
-                func.count(func.distinct(Upload.artifact_id)),
+                func.count(func.distinct(Tag.artifact_id)),
                 func.coalesce(func.sum(Artifact.size), 0),
             )
-            .join(Artifact, Upload.artifact_id == Artifact.id)
-            .filter(Upload.package_id == pkg.id)
+            .join(Artifact, Tag.artifact_id == Artifact.id)
+            .filter(Tag.package_id == pkg.id)
             .first()
         )
         artifact_count = artifact_stats[0] if artifact_stats else 0
@@ -2930,14 +2934,15 @@ def get_package(
         db.query(func.count(Tag.id)).filter(Tag.package_id == pkg.id).scalar() or 0
     )
 
-    # Get unique artifact count and total size via uploads
+    # Get unique artifact count and total size via tags
+    # (PyPI proxy creates tags without uploads, so query from tags)
     artifact_stats = (
         db.query(
-            func.count(func.distinct(Upload.artifact_id)),
+            func.count(func.distinct(Tag.artifact_id)),
             func.coalesce(func.sum(Artifact.size), 0),
         )
-        .join(Artifact, Upload.artifact_id == Artifact.id)
-        .filter(Upload.package_id == pkg.id)
+        .join(Artifact, Tag.artifact_id == Artifact.id)
+        .filter(Tag.package_id == pkg.id)
         .first()
     )
     artifact_count = artifact_stats[0] if artifact_stats else 0
@@ -6280,14 +6285,14 @@ def get_package_stats(
         db.query(func.count(Tag.id)).filter(Tag.package_id == package.id).scalar() or 0
     )
 
-    # Artifact stats via uploads
+    # Artifact stats via tags (tags exist for both user uploads and PyPI proxy)
     artifact_stats = (
         db.query(
-            func.count(func.distinct(Upload.artifact_id)),
+            func.count(func.distinct(Tag.artifact_id)),
             func.coalesce(func.sum(Artifact.size), 0),
         )
-        .join(Artifact, Upload.artifact_id == Artifact.id)
-        .filter(Upload.package_id == package.id)
+        .join(Artifact, Tag.artifact_id == Artifact.id)
+        .filter(Tag.package_id == package.id)
         .first()
     )
     artifact_count = artifact_stats[0] if artifact_stats else 0

backend/app/schemas.py

@@ -33,6 +33,7 @@ class ProjectResponse(BaseModel):
     name: str
     description: Optional[str]
     is_public: bool
+    is_system: bool = False
     created_at: datetime
     updated_at: datetime
     created_by: str
@@ -1032,10 +1033,19 @@ class ResolvedArtifact(BaseModel):
     download_url: str
 
 
+class MissingDependency(BaseModel):
+    """A dependency that could not be resolved (not cached on server)"""
+    project: str
+    package: str
+    constraint: Optional[str] = None
+    required_by: Optional[str] = None
+
+
 class DependencyResolutionResponse(BaseModel):
     """Response from dependency resolution endpoint"""
     requested: Dict[str, str]  # project, package, ref
     resolved: List[ResolvedArtifact]
+    missing: List[MissingDependency] = []
     total_size: int
     artifact_count: int
 

backend/scripts/__init__.py

@@ -0,0 +1 @@
+# Scripts package

backend/scripts/backfill_pypi_dependencies.py

@@ -0,0 +1,262 @@
+#!/usr/bin/env python3
+"""
+Backfill script to extract dependencies from cached PyPI packages.
+
+This script scans all artifacts in the _pypi project and extracts
+Requires-Dist metadata from wheel and sdist files that don't already
+have dependencies recorded.
+
+Usage:
+    # From within the container:
+    python -m scripts.backfill_pypi_dependencies
+
+    # Or with docker exec:
+    docker exec orchard_orchard-server_1 python -m scripts.backfill_pypi_dependencies
+
+    # Dry run (preview only):
+    docker exec orchard_orchard-server_1 python -m scripts.backfill_pypi_dependencies --dry-run
+"""
+
+import argparse
+import logging
+import re
+import sys
+import tarfile
+import zipfile
+from io import BytesIO
+from typing import List, Optional, Tuple
+
+# Add parent directory to path for imports
+sys.path.insert(0, "/app")
+
+from sqlalchemy import create_engine
+from sqlalchemy.orm import sessionmaker
+
+from backend.app.config import get_settings
+from backend.app.models import (
+    Artifact,
+    ArtifactDependency,
+    Package,
+    Project,
+    Tag,
+)
+from backend.app.storage import get_storage
+
+logging.basicConfig(
+    level=logging.INFO,
+    format="%(asctime)s - %(levelname)s - %(message)s",
+)
+logger = logging.getLogger(__name__)
+
+
+def parse_requires_dist(requires_dist: str) -> Tuple[Optional[str], Optional[str]]:
+    """Parse a Requires-Dist line into (package_name, version_constraint)."""
+    # Remove any environment markers (after semicolon)
+    if ";" in requires_dist:
+        requires_dist = requires_dist.split(";")[0].strip()
+
+    # Match patterns like "package (>=1.0)" or "package>=1.0" or "package"
+    match = re.match(
+        r"^([a-zA-Z0-9][-a-zA-Z0-9._]*)\s*(?:\(([^)]+)\)|([<>=!~][^\s;]+))?",
+        requires_dist.strip(),
+    )
+
+    if not match:
+        return None, None
+
+    package_name = match.group(1)
+    version_constraint = match.group(2) or match.group(3)
+
+    # Normalize package name (PEP 503)
+    normalized_name = re.sub(r"[-_.]+", "-", package_name).lower()
+
+    if version_constraint:
+        version_constraint = version_constraint.strip()
+
+    return normalized_name, version_constraint
+
+
+def extract_requires_from_metadata(metadata_content: str) -> List[Tuple[str, Optional[str]]]:
+    """Extract all Requires-Dist entries from METADATA/PKG-INFO content."""
+    dependencies = []
+
+    for line in metadata_content.split("\n"):
+        if line.startswith("Requires-Dist:"):
+            value = line[len("Requires-Dist:"):].strip()
+            pkg_name, version = parse_requires_dist(value)
+            if pkg_name:
+                dependencies.append((pkg_name, version))
+
+    return dependencies
+
+
+def extract_metadata_from_wheel(content: bytes) -> Optional[str]:
+    """Extract METADATA file content from a wheel (zip) file."""
+    try:
+        with zipfile.ZipFile(BytesIO(content)) as zf:
+            for name in zf.namelist():
+                if name.endswith(".dist-info/METADATA"):
+                    return zf.read(name).decode("utf-8", errors="replace")
+    except Exception as e:
+        logger.warning(f"Failed to extract metadata from wheel: {e}")
+    return None
+
+
+def extract_metadata_from_sdist(content: bytes) -> Optional[str]:
+    """Extract PKG-INFO file content from a source distribution (.tar.gz)."""
+    try:
+        with tarfile.open(fileobj=BytesIO(content), mode="r:gz") as tf:
+            for member in tf.getmembers():
+                if member.name.endswith("/PKG-INFO") and member.name.count("/") == 1:
+                    f = tf.extractfile(member)
+                    if f:
+                        return f.read().decode("utf-8", errors="replace")
+    except Exception as e:
+        logger.warning(f"Failed to extract metadata from sdist: {e}")
+    return None
+
+
+def extract_dependencies(content: bytes, filename: str) -> List[Tuple[str, Optional[str]]]:
+    """Extract dependencies from a PyPI package file."""
+    metadata = None
+
+    if filename.endswith(".whl"):
+        metadata = extract_metadata_from_wheel(content)
+    elif filename.endswith(".tar.gz"):
+        metadata = extract_metadata_from_sdist(content)
+
+    if metadata:
+        return extract_requires_from_metadata(metadata)
+
+    return []
+
+
+def backfill_dependencies(dry_run: bool = False):
+    """Main backfill function."""
+    settings = get_settings()
+
+    # Create database connection
+    engine = create_engine(settings.database_url)
+    Session = sessionmaker(bind=engine)
+    db = Session()
+
+    # Create storage client
+    storage = get_storage()
+
+    try:
+        # Find the _pypi project
+        pypi_project = db.query(Project).filter(Project.name == "_pypi").first()
+        if not pypi_project:
+            logger.info("No _pypi project found. Nothing to backfill.")
+            return
+
+        # Get all packages in _pypi
+        packages = db.query(Package).filter(Package.project_id == pypi_project.id).all()
+        logger.info(f"Found {len(packages)} packages in _pypi project")
+
+        total_artifacts = 0
+        artifacts_with_deps = 0
+        artifacts_processed = 0
+        dependencies_added = 0
+
+        for package in packages:
+            # Get all tags (each tag points to an artifact)
+            tags = db.query(Tag).filter(Tag.package_id == package.id).all()
+
+            for tag in tags:
+                total_artifacts += 1
+                filename = tag.name
+
+                # Skip non-package files (like .metadata files)
+                if not (filename.endswith(".whl") or filename.endswith(".tar.gz")):
+                    continue
+
+                # Check if this artifact already has dependencies
+                existing_deps = db.query(ArtifactDependency).filter(
+                    ArtifactDependency.artifact_id == tag.artifact_id
+                ).count()
+
+                if existing_deps > 0:
+                    artifacts_with_deps += 1
+                    continue
+
+                # Get the artifact
+                artifact = db.query(Artifact).filter(Artifact.id == tag.artifact_id).first()
+                if not artifact:
+                    logger.warning(f"Artifact {tag.artifact_id} not found for tag {filename}")
+                    continue
+
+                logger.info(f"Processing {package.name}/{filename}...")
+
+                if dry_run:
+                    logger.info(f"  [DRY RUN] Would extract dependencies from {filename}")
+                    artifacts_processed += 1
+                    continue
+
+                # Download the artifact from S3
+                try:
+                    content = storage.get(artifact.s3_key)
+                except Exception as e:
+                    logger.error(f"  Failed to download {filename}: {e}")
+                    continue
+
+                # Extract dependencies
+                deps = extract_dependencies(content, filename)
+
+                if deps:
+                    logger.info(f"  Found {len(deps)} dependencies")
+                    for dep_name, dep_version in deps:
+                        # Check if already exists (race condition protection)
+                        existing = db.query(ArtifactDependency).filter(
+                            ArtifactDependency.artifact_id == tag.artifact_id,
+                            ArtifactDependency.dependency_project == "_pypi",
+                            ArtifactDependency.dependency_package == dep_name,
+                        ).first()
+
+                        if not existing:
+                            dep = ArtifactDependency(
+                                artifact_id=tag.artifact_id,
+                                dependency_project="_pypi",
+                                dependency_package=dep_name,
+                                version_constraint=dep_version if dep_version else "*",
+                            )
+                            db.add(dep)
+                            dependencies_added += 1
+                            logger.info(f"    + {dep_name} {dep_version or '*'}")
+
+                    db.commit()
+                else:
+                    logger.info(f"  No dependencies found")
+
+                artifacts_processed += 1
+
+        logger.info("")
+        logger.info("=" * 50)
+        logger.info("Backfill complete!")
+        logger.info(f"  Total artifacts: {total_artifacts}")
+        logger.info(f"  Already had deps: {artifacts_with_deps}")
+        logger.info(f"  Processed: {artifacts_processed}")
+        logger.info(f"  Dependencies added: {dependencies_added}")
+        if dry_run:
+            logger.info("  (DRY RUN - no changes made)")
+
+    finally:
+        db.close()
+
+
+def main():
+    parser = argparse.ArgumentParser(
+        description="Backfill dependencies for cached PyPI packages"
+    )
+    parser.add_argument(
+        "--dry-run",
+        action="store_true",
+        help="Preview what would be done without making changes",
+    )
+    args = parser.parse_args()
+
+    backfill_dependencies(dry_run=args.dry_run)
+
+
+if __name__ == "__main__":
+    main()

backend/tests/integration/test_projects_api.py

@@ -128,7 +128,9 @@ class TestProjectListingFilters:
         assert response.status_code == 200
 
         data = response.json()
-        names = [p["name"] for p in data["items"]]
+        # Filter out system projects (names starting with "_") as they may have
+        # collation-specific sort behavior and aren't part of the test data
+        names = [p["name"] for p in data["items"] if not p["name"].startswith("_")]
         assert names == sorted(names)
 
 

backend/tests/integration/test_pypi_proxy.py

@@ -17,21 +17,31 @@ class TestPyPIProxyEndpoints:
     """
 
     @pytest.mark.integration
-    def test_pypi_simple_index_no_sources(self):
-        """Test that /pypi/simple/ returns 503 when no sources configured."""
+    def test_pypi_simple_index(self):
+        """Test that /pypi/simple/ returns HTML response."""
         with httpx.Client(base_url=get_base_url(), timeout=30.0) as client:
             response = client.get("/pypi/simple/")
-            # Should return 503 when no PyPI upstream sources are configured
-            assert response.status_code == 503
-            assert "No PyPI upstream sources configured" in response.json()["detail"]
+            # Returns 200 if sources configured, 503 if not
+            assert response.status_code in (200, 503)
+            if response.status_code == 200:
+                assert "text/html" in response.headers.get("content-type", "")
+            else:
+                assert "No PyPI upstream sources configured" in response.json()["detail"]
 
     @pytest.mark.integration
-    def test_pypi_package_no_sources(self):
-        """Test that /pypi/simple/{package}/ returns 503 when no sources configured."""
+    def test_pypi_package_endpoint(self):
+        """Test that /pypi/simple/{package}/ returns appropriate response."""
         with httpx.Client(base_url=get_base_url(), timeout=30.0) as client:
             response = client.get("/pypi/simple/requests/")
-            assert response.status_code == 503
-            assert "No PyPI upstream sources configured" in response.json()["detail"]
+            # Returns 200 if sources configured and package found,
+            # 404 if package not found, 503 if no sources
+            assert response.status_code in (200, 404, 503)
+            if response.status_code == 200:
+                assert "text/html" in response.headers.get("content-type", "")
+            elif response.status_code == 404:
+                assert "not found" in response.json()["detail"].lower()
+            else:  # 503
+                assert "No PyPI upstream sources configured" in response.json()["detail"]
 
     @pytest.mark.integration
     def test_pypi_download_missing_upstream_param(self):
@@ -58,7 +68,13 @@ class TestPyPILinkRewriting:
         </html>
         '''
 
-        result = _rewrite_package_links(html, "http://localhost:8080", "requests")
+        # upstream_base_url is used to resolve relative URLs (not needed here since URLs are absolute)
+        result = _rewrite_package_links(
+            html,
+            "http://localhost:8080",
+            "requests",
+            "https://pypi.org/simple/requests/"
+        )
 
         # Links should be rewritten to go through our proxy
         assert "/pypi/simple/requests/requests-2.31.0.tar.gz?upstream=" in result
@@ -69,25 +85,53 @@ class TestPyPILinkRewriting:
         assert "#sha256=abc123" in result
         assert "#sha256=def456" in result
 
+    def test_rewrite_relative_links(self):
+        """Test that relative URLs are resolved to absolute URLs."""
+        from app.pypi_proxy import _rewrite_package_links
+
+        # Artifactory-style relative URLs
+        html = '''
+        <html>
+        <body>
+        <a href="../../packages/ab/cd/requests-2.31.0.tar.gz#sha256=abc123">requests-2.31.0.tar.gz</a>
+        </body>
+        </html>
+        '''
+
+        result = _rewrite_package_links(
+            html,
+            "https://orchard.example.com",
+            "requests",
+            "https://artifactory.example.com/api/pypi/pypi-remote/simple/requests/"
+        )
+
+        # The relative URL should be resolved to absolute
+        # ../../packages/ab/cd/... from /api/pypi/pypi-remote/simple/requests/ resolves to /api/pypi/pypi-remote/packages/ab/cd/...
+        assert "upstream=https%3A%2F%2Fartifactory.example.com%2Fapi%2Fpypi%2Fpypi-remote%2Fpackages" in result
+        # Hash fragment should be preserved
+        assert "#sha256=abc123" in result
+
 
 class TestPyPIPackageNormalization:
     """Tests for PyPI package name normalization."""
 
     @pytest.mark.integration
     def test_package_name_normalized(self):
-        """Test that package names are normalized per PEP 503."""
-        # These should all be treated the same:
-        # requests, Requests, requests_, requests-
-        # The endpoint normalizes to lowercase with hyphens
+        """Test that package names are normalized per PEP 503.
 
+        Different capitalizations/separators should all be valid paths.
+        The endpoint normalizes to lowercase with hyphens before lookup.
+        """
         with httpx.Client(base_url=get_base_url(), timeout=30.0) as client:
-            # Without upstream sources, we get 503, but the normalization
-            # happens before the source lookup
-            response = client.get("/pypi/simple/Requests/")
-            assert response.status_code == 503  # No sources, but path was valid
+            # Test various name formats - all should be valid endpoint paths
+            for package_name in ["Requests", "some_package", "some-package"]:
+                response = client.get(f"/pypi/simple/{package_name}/")
+                # 200 = found, 404 = not found, 503 = no sources configured
+                assert response.status_code in (200, 404, 503), \
+                    f"Unexpected status {response.status_code} for {package_name}"
 
-            response = client.get("/pypi/simple/some_package/")
-            assert response.status_code == 503
-
-            response = client.get("/pypi/simple/some-package/")
-            assert response.status_code == 503
+                # Verify response is appropriate for the status code
+                if response.status_code == 200:
+                    assert "text/html" in response.headers.get("content-type", "")
+                elif response.status_code == 503:
+                    assert "No PyPI upstream sources configured" in response.json()["detail"]

frontend/src/api.ts

@@ -78,7 +78,13 @@ export class ForbiddenError extends ApiError {
 async function handleResponse<T>(response: Response): Promise<T> {
   if (!response.ok) {
     const error = await response.json().catch(() => ({ detail: 'Unknown error' }));
-    const message = error.detail || `HTTP ${response.status}`;
+    // Handle detail as string or object (backend may return structured errors)
+    let message: string;
+    if (typeof error.detail === 'object') {
+      message = JSON.stringify(error.detail);
+    } else {
+      message = error.detail || `HTTP ${response.status}`;
+    }
 
     if (response.status === 401) {
       throw new UnauthorizedError(message);
@@ -746,3 +752,4 @@ export async function testUpstreamSource(id: string): Promise<UpstreamSourceTest
   });
   return handleResponse<UpstreamSourceTestResult>(response);
 }
+

frontend/src/components/DependencyGraph.css

@@ -55,6 +55,10 @@
   font-size: 0.8125rem;
 }
 
+.missing-count {
+  color: #f59e0b;
+}
+
 .close-btn {
   background: transparent;
   border: none;
@@ -314,6 +318,63 @@
   font-size: 0.75rem;
 }
 
+/* Missing Dependencies */
+.missing-dependencies {
+  border-top: 1px solid var(--border-primary);
+  padding: 16px 20px;
+  background: rgba(245, 158, 11, 0.05);
+  max-height: 200px;
+  overflow-y: auto;
+}
+
+.missing-dependencies h3 {
+  margin: 0 0 8px 0;
+  font-size: 0.875rem;
+  font-weight: 600;
+  color: #f59e0b;
+}
+
+.missing-hint {
+  margin: 0 0 12px 0;
+  font-size: 0.75rem;
+  color: var(--text-muted);
+}
+
+.missing-list {
+  list-style: none;
+  padding: 0;
+  margin: 0;
+  display: flex;
+  flex-wrap: wrap;
+  gap: 8px;
+}
+
+.missing-item {
+  display: inline-flex;
+  align-items: center;
+  gap: 4px;
+  background: var(--bg-tertiary);
+  border: 1px solid rgba(245, 158, 11, 0.3);
+  border-radius: var(--radius-sm);
+  padding: 4px 8px;
+  font-size: 0.75rem;
+}
+
+.missing-name {
+  font-family: 'JetBrains Mono', monospace;
+  color: var(--text-secondary);
+}
+
+.missing-constraint {
+  color: var(--text-muted);
+  font-family: 'JetBrains Mono', monospace;
+}
+
+.missing-required-by {
+  color: var(--text-muted);
+  font-size: 0.6875rem;
+}
+
 /* Responsive */
 @media (max-width: 768px) {
   .dependency-graph-modal {

frontend/src/components/DependencyGraph.tsx

@@ -244,7 +244,11 @@ function DependencyGraph({ projectName, packageName, tagName, onClose }: Depende
             <span>{projectName}/{packageName} @ {tagName}</span>
             {resolution && (
               <span className="graph-stats">
-                {resolution.artifact_count} packages • {formatBytes(resolution.total_size)} total
+                {resolution.artifact_count} cached
+                {resolution.missing && resolution.missing.length > 0 && (
+                  <span className="missing-count"> • {resolution.missing.length} not cached</span>
+                )}
+                 • {formatBytes(resolution.total_size)} total
               </span>
             )}
           </div>
@@ -307,6 +311,22 @@ function DependencyGraph({ projectName, packageName, tagName, onClose }: Depende
           )}
         </div>
 
+        {resolution && resolution.missing && resolution.missing.length > 0 && (
+          <div className="missing-dependencies">
+            <h3>Not Cached ({resolution.missing.length})</h3>
+            <p className="missing-hint">These dependencies are referenced but not yet cached on the server.</p>
+            <ul className="missing-list">
+              {resolution.missing.map((dep, i) => (
+                <li key={i} className="missing-item">
+                  <span className="missing-name">{dep.project}/{dep.package}</span>
+                  {dep.constraint && <span className="missing-constraint">@{dep.constraint}</span>}
+                  {dep.required_by && <span className="missing-required-by">← {dep.required_by}</span>}
+                </li>
+              ))}
+            </ul>
+          </div>
+        )}
+
         {hoveredNode && (
           <div className="graph-tooltip">
             <strong>{hoveredNode.project}/{hoveredNode.package}</strong>

frontend/src/pages/AdminCachePage.css

@@ -132,6 +132,12 @@
   color: #c62828;
 }
 
+.coming-soon-badge {
+  color: #9e9e9e;
+  font-style: italic;
+  font-size: 0.85em;
+}
+
 /* Actions */
 .actions-cell {
   white-space: nowrap;

frontend/src/pages/AdminCachePage.tsx

@@ -12,6 +12,7 @@ import { UpstreamSource, SourceType, AuthType } from '../types';
 import './AdminCachePage.css';
 
 const SOURCE_TYPES: SourceType[] = ['npm', 'pypi', 'maven', 'docker', 'helm', 'nuget', 'deb', 'rpm', 'generic'];
+const SUPPORTED_SOURCE_TYPES: Set<SourceType> = new Set(['pypi', 'generic']);
 const AUTH_TYPES: AuthType[] = ['none', 'basic', 'bearer', 'api_key'];
 
 function AdminCachePage() {
@@ -285,7 +286,12 @@ function AdminCachePage() {
                       <span className="env-badge" title="Defined via environment variable">ENV</span>
                     )}
                   </td>
-                  <td>{source.source_type}</td>
+                  <td>
+                    {source.source_type}
+                    {!SUPPORTED_SOURCE_TYPES.has(source.source_type) && (
+                      <span className="coming-soon-badge"> (coming soon)</span>
+                    )}
+                  </td>
                   <td className="url-cell" title={source.url}>{source.url}</td>
                   <td>{source.priority}</td>
                   <td>
@@ -359,7 +365,7 @@ function AdminCachePage() {
                   >
                     {SOURCE_TYPES.map((type) => (
                       <option key={type} value={type}>
-                        {type}
+                        {type}{!SUPPORTED_SOURCE_TYPES.has(type) ? ' (coming soon)' : ''}
                       </option>
                     ))}
                   </select>

frontend/src/pages/Home.tsx

@@ -249,7 +249,7 @@ function Home() {
               key: 'created_by',
               header: 'Owner',
               className: 'cell-owner',
-              render: (project) => project.created_by,
+              render: (project) => project.team_name || project.created_by,
             },
             ...(user
               ? [

frontend/src/pages/PackagePage.css

@@ -642,6 +642,11 @@ tr:hover .copy-btn {
   padding: 20px;
 }
 
+/* Ensure file modal needs higher z-index when opened from deps modal */
+.modal-overlay:has(.ensure-file-modal) {
+  z-index: 1100;
+}
+
 .ensure-file-modal {
   background: var(--bg-secondary);
   border: 1px solid var(--border-primary);
@@ -793,4 +798,194 @@ tr:hover .copy-btn {
   .ensure-file-modal {
     max-height: 90vh;
   }
+
+  .action-menu-dropdown {
+    right: 0;
+    left: auto;
+  }
+}
+
+/* Header upload button */
+.header-upload-btn {
+  margin-left: auto;
+}
+
+/* Tag/Version cell */
+.tag-version-cell {
+  display: flex;
+  flex-direction: column;
+  gap: 4px;
+}
+
+.tag-version-cell .version-badge {
+  font-size: 0.75rem;
+  color: var(--text-muted);
+}
+
+/* Icon buttons */
+.btn-icon {
+  display: flex;
+  align-items: center;
+  justify-content: center;
+  width: 32px;
+  height: 32px;
+  padding: 0;
+  background: transparent;
+  border: 1px solid transparent;
+  border-radius: var(--radius-sm);
+  color: var(--text-secondary);
+  cursor: pointer;
+  transition: all var(--transition-fast);
+}
+
+.btn-icon:hover {
+  background: var(--bg-hover);
+  color: var(--text-primary);
+}
+
+/* Action menu */
+.action-buttons {
+  display: flex;
+  align-items: center;
+  gap: 4px;
+}
+
+.action-menu {
+  position: relative;
+}
+
+/* Action menu backdrop for click-outside */
+.action-menu-backdrop {
+  position: fixed;
+  top: 0;
+  left: 0;
+  right: 0;
+  bottom: 0;
+  z-index: 999;
+}
+
+.action-menu-dropdown {
+  position: fixed;
+  z-index: 1000;
+  min-width: 180px;
+  padding: 4px 0;
+  background: var(--bg-secondary);
+  border: 1px solid var(--border-primary);
+  border-radius: var(--radius-md);
+  box-shadow: 0 4px 12px rgba(0, 0, 0, 0.15);
+}
+
+.action-menu-dropdown button {
+  display: block;
+  width: 100%;
+  padding: 8px 12px;
+  background: none;
+  border: none;
+  text-align: left;
+  font-size: 0.875rem;
+  color: var(--text-primary);
+  cursor: pointer;
+  transition: background var(--transition-fast);
+}
+
+.action-menu-dropdown button:hover {
+  background: var(--bg-hover);
+}
+
+/* Upload Modal */
+.upload-modal,
+.create-tag-modal {
+  background: var(--bg-secondary);
+  border-radius: var(--radius-lg);
+  width: 90%;
+  max-width: 500px;
+  max-height: 90vh;
+  overflow: hidden;
+}
+
+.modal-header {
+  display: flex;
+  align-items: center;
+  justify-content: space-between;
+  padding: 16px 20px;
+  border-bottom: 1px solid var(--border-primary);
+}
+
+.modal-header h3 {
+  margin: 0;
+  font-size: 1.125rem;
+  font-weight: 600;
+}
+
+.modal-body {
+  padding: 20px;
+}
+
+.modal-description {
+  margin-bottom: 16px;
+  color: var(--text-secondary);
+  font-size: 0.875rem;
+}
+
+.modal-actions {
+  display: flex;
+  justify-content: flex-end;
+  gap: 12px;
+  margin-top: 20px;
+  padding-top: 16px;
+  border-top: 1px solid var(--border-primary);
+}
+
+/* Dependencies Modal */
+.deps-modal {
+  background: var(--bg-secondary);
+  border-radius: var(--radius-lg);
+  width: 90%;
+  max-width: 600px;
+  max-height: 80vh;
+  overflow: hidden;
+  display: flex;
+  flex-direction: column;
+}
+
+.deps-modal .modal-body {
+  overflow-y: auto;
+  flex: 1;
+}
+
+.deps-modal-controls {
+  display: flex;
+  gap: 8px;
+  margin-bottom: 16px;
+}
+
+/* Artifact ID Modal */
+.artifact-id-modal {
+  background: var(--bg-secondary);
+  border-radius: var(--radius-lg);
+  width: 90%;
+  max-width: 500px;
+}
+
+.artifact-id-display {
+  display: flex;
+  align-items: center;
+  gap: 12px;
+  padding: 16px;
+  background: var(--bg-tertiary);
+  border-radius: var(--radius-md);
+  border: 1px solid var(--border-primary);
+}
+
+.artifact-id-display code {
+  font-family: 'JetBrains Mono', 'Fira Code', 'Consolas', monospace;
+  font-size: 0.8125rem;
+  color: var(--text-primary);
+  word-break: break-all;
+  flex: 1;
+}
+
+.artifact-id-display .copy-btn {
+  opacity: 1;
+  flex-shrink: 0;
 }

frontend/src/pages/PackagePage.tsx

@@ -63,12 +63,17 @@ function PackagePage() {
   const [accessDenied, setAccessDenied] = useState(false);
   const [uploadTag, setUploadTag] = useState('');
   const [uploadSuccess, setUploadSuccess] = useState<string | null>(null);
-  const [artifactIdInput, setArtifactIdInput] = useState('');
   const [accessLevel, setAccessLevel] = useState<AccessLevel | null>(null);
   const [createTagName, setCreateTagName] = useState('');
   const [createTagArtifactId, setCreateTagArtifactId] = useState('');
   const [createTagLoading, setCreateTagLoading] = useState(false);
 
+  // UI state
+  const [showUploadModal, setShowUploadModal] = useState(false);
+  const [showCreateTagModal, setShowCreateTagModal] = useState(false);
+  const [openMenuId, setOpenMenuId] = useState<string | null>(null);
+  const [menuPosition, setMenuPosition] = useState<{ top: number; left: number } | null>(null);
+
   // Dependencies state
   const [selectedTag, setSelectedTag] = useState<TagDetail | null>(null);
   const [dependencies, setDependencies] = useState<Dependency[]>([]);
@@ -86,6 +91,13 @@ function PackagePage() {
   // Dependency graph modal state
   const [showGraph, setShowGraph] = useState(false);
 
+  // Dependencies modal state
+  const [showDepsModal, setShowDepsModal] = useState(false);
+
+  // Artifact ID modal state
+  const [showArtifactIdModal, setShowArtifactIdModal] = useState(false);
+  const [viewArtifactId, setViewArtifactId] = useState<string | null>(null);
+
   // Ensure file modal state
   const [showEnsureFile, setShowEnsureFile] = useState(false);
   const [ensureFileContent, setEnsureFileContent] = useState<string | null>(null);
@@ -96,6 +108,9 @@ function PackagePage() {
   // Derived permissions
   const canWrite = accessLevel === 'write' || accessLevel === 'admin';
 
+  // Detect system projects (convention: name starts with "_")
+  const isSystemProject = projectName?.startsWith('_') ?? false;
+
   // Get params from URL
   const page = parseInt(searchParams.get('page') || '1', 10);
   const search = searchParams.get('search') || '';
@@ -323,92 +338,212 @@ function PackagePage() {
     setSelectedTag(tag);
   };
 
-  const columns = [
-    {
-      key: 'name',
-      header: 'Tag',
-      sortable: true,
-      render: (t: TagDetail) => (
-        <strong
-          className={`tag-name-link ${selectedTag?.id === t.id ? 'selected' : ''}`}
-          onClick={() => handleTagSelect(t)}
-          style={{ cursor: 'pointer' }}
+  const handleMenuOpen = (e: React.MouseEvent, tagId: string) => {
+    e.stopPropagation();
+    if (openMenuId === tagId) {
+      setOpenMenuId(null);
+      setMenuPosition(null);
+    } else {
+      const rect = e.currentTarget.getBoundingClientRect();
+      setMenuPosition({ top: rect.bottom + 4, left: rect.right - 180 });
+      setOpenMenuId(tagId);
+    }
+  };
+
+  // System projects show Version first, regular projects show Tag first
+  const columns = isSystemProject
+    ? [
+        // System project columns: Version first, then Filename
+        {
+          key: 'version',
+          header: 'Version',
+          sortable: true,
+          render: (t: TagDetail) => (
+            <strong
+              className={`tag-name-link ${selectedTag?.id === t.id ? 'selected' : ''}`}
+              onClick={() => handleTagSelect(t)}
+              style={{ cursor: 'pointer' }}
+            >
+              <span className="version-badge">{t.version || t.name}</span>
+            </strong>
+          ),
+        },
+        {
+          key: 'artifact_original_name',
+          header: 'Filename',
+          className: 'cell-truncate',
+          render: (t: TagDetail) => (
+            <span title={t.artifact_original_name || t.name}>{t.artifact_original_name || t.name}</span>
+          ),
+        },
+        {
+          key: 'artifact_size',
+          header: 'Size',
+          render: (t: TagDetail) => <span>{formatBytes(t.artifact_size)}</span>,
+        },
+        {
+          key: 'created_at',
+          header: 'Cached',
+          sortable: true,
+          render: (t: TagDetail) => (
+            <span>{new Date(t.created_at).toLocaleDateString()}</span>
+          ),
+        },
+        {
+          key: 'actions',
+          header: '',
+          render: (t: TagDetail) => (
+            <div className="action-buttons">
+              <a
+                href={getDownloadUrl(projectName!, packageName!, t.name)}
+                className="btn btn-icon"
+                download
+                title="Download"
+              >
+                <svg width="16" height="16" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2">
+                  <path d="M21 15v4a2 2 0 0 1-2 2H5a2 2 0 0 1-2-2v-4" />
+                  <polyline points="7 10 12 15 17 10" />
+                  <line x1="12" y1="15" x2="12" y2="3" />
+                </svg>
+              </a>
+              <button
+                className="btn btn-icon"
+                onClick={(e) => handleMenuOpen(e, t.id)}
+                title="More actions"
+              >
+                <svg width="16" height="16" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2">
+                  <circle cx="12" cy="12" r="1" />
+                  <circle cx="12" cy="5" r="1" />
+                  <circle cx="12" cy="19" r="1" />
+                </svg>
+              </button>
+            </div>
+          ),
+        },
+      ]
+    : [
+        // Regular project columns: Tag, Version, Filename
+        {
+          key: 'name',
+          header: 'Tag',
+          sortable: true,
+          render: (t: TagDetail) => (
+            <strong
+              className={`tag-name-link ${selectedTag?.id === t.id ? 'selected' : ''}`}
+              onClick={() => handleTagSelect(t)}
+              style={{ cursor: 'pointer' }}
+            >
+              {t.name}
+            </strong>
+          ),
+        },
+        {
+          key: 'version',
+          header: 'Version',
+          render: (t: TagDetail) => (
+            <span className="version-badge">{t.version || '—'}</span>
+          ),
+        },
+        {
+          key: 'artifact_original_name',
+          header: 'Filename',
+          className: 'cell-truncate',
+          render: (t: TagDetail) => (
+            <span title={t.artifact_original_name || undefined}>{t.artifact_original_name || '—'}</span>
+          ),
+        },
+        {
+          key: 'artifact_size',
+          header: 'Size',
+          render: (t: TagDetail) => <span>{formatBytes(t.artifact_size)}</span>,
+        },
+        {
+          key: 'created_at',
+          header: 'Created',
+          sortable: true,
+          render: (t: TagDetail) => (
+            <span title={`by ${t.created_by}`}>{new Date(t.created_at).toLocaleDateString()}</span>
+          ),
+        },
+        {
+          key: 'actions',
+          header: '',
+          render: (t: TagDetail) => (
+            <div className="action-buttons">
+              <a
+                href={getDownloadUrl(projectName!, packageName!, t.name)}
+                className="btn btn-icon"
+                download
+                title="Download"
+              >
+                <svg width="16" height="16" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2">
+                  <path d="M21 15v4a2 2 0 0 1-2 2H5a2 2 0 0 1-2-2v-4" />
+                  <polyline points="7 10 12 15 17 10" />
+                  <line x1="12" y1="15" x2="12" y2="3" />
+                </svg>
+              </a>
+              <button
+                className="btn btn-icon"
+                onClick={(e) => handleMenuOpen(e, t.id)}
+                title="More actions"
+              >
+                <svg width="16" height="16" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2">
+                  <circle cx="12" cy="12" r="1" />
+                  <circle cx="12" cy="5" r="1" />
+                  <circle cx="12" cy="19" r="1" />
+                </svg>
+              </button>
+            </div>
+          ),
+        },
+      ];
+
+  // Find the tag for the open menu
+  const openMenuTag = tags.find(t => t.id === openMenuId);
+
+  // Close menu when clicking outside
+  const handleClickOutside = () => {
+    if (openMenuId) {
+      setOpenMenuId(null);
+      setMenuPosition(null);
+    }
+  };
+
+  // Render dropdown menu as a portal-like element
+  const renderActionMenu = () => {
+    if (!openMenuId || !menuPosition || !openMenuTag) return null;
+    const t = openMenuTag;
+    return (
+      <div
+        className="action-menu-backdrop"
+        onClick={handleClickOutside}
+      >
+        <div
+          className="action-menu-dropdown"
+          style={{ top: menuPosition.top, left: menuPosition.left }}
+          onClick={(e) => e.stopPropagation()}
         >
-          {t.name}
-        </strong>
-      ),
-    },
-    {
-      key: 'version',
-      header: 'Version',
-      render: (t: TagDetail) => (
-        <span className="version-badge">{t.version || '-'}</span>
-      ),
-    },
-    {
-      key: 'artifact_id',
-      header: 'Artifact ID',
-      render: (t: TagDetail) => (
-        <div className="artifact-id-cell">
-          <code className="artifact-id">{t.artifact_id.substring(0, 12)}...</code>
-          <CopyButton text={t.artifact_id} />
-        </div>
-      ),
-    },
-    {
-      key: 'artifact_size',
-      header: 'Size',
-      render: (t: TagDetail) => <span>{formatBytes(t.artifact_size)}</span>,
-    },
-    {
-      key: 'artifact_content_type',
-      header: 'Type',
-      render: (t: TagDetail) => (
-        <span className="content-type">{t.artifact_content_type || '-'}</span>
-      ),
-    },
-    {
-      key: 'artifact_original_name',
-      header: 'Filename',
-      className: 'cell-truncate',
-      render: (t: TagDetail) => (
-        <span title={t.artifact_original_name || undefined}>{t.artifact_original_name || '-'}</span>
-      ),
-    },
-    {
-      key: 'created_at',
-      header: 'Created',
-      sortable: true,
-      render: (t: TagDetail) => (
-        <div className="created-cell">
-          <span>{new Date(t.created_at).toLocaleString()}</span>
-          <span className="created-by">by {t.created_by}</span>
-        </div>
-      ),
-    },
-    {
-      key: 'actions',
-      header: 'Actions',
-      render: (t: TagDetail) => (
-        <div className="action-buttons">
-          <button
-            className="btn btn-secondary btn-small"
-            onClick={() => fetchEnsureFileForTag(t.name)}
-            title="View orchard.ensure file"
-          >
-            Ensure
+          <button onClick={() => { setViewArtifactId(t.artifact_id); setShowArtifactIdModal(true); setOpenMenuId(null); setMenuPosition(null); }}>
+            View Artifact ID
+          </button>
+          <button onClick={() => { navigator.clipboard.writeText(t.artifact_id); setOpenMenuId(null); setMenuPosition(null); }}>
+            Copy Artifact ID
+          </button>
+          <button onClick={() => { fetchEnsureFileForTag(t.name); setOpenMenuId(null); setMenuPosition(null); }}>
+            View Ensure File
+          </button>
+          {canWrite && !isSystemProject && (
+            <button onClick={() => { setCreateTagArtifactId(t.artifact_id); setShowCreateTagModal(true); setOpenMenuId(null); setMenuPosition(null); }}>
+              Create/Update Tag
+            </button>
+          )}
+          <button onClick={() => { handleTagSelect(t); setShowDepsModal(true); setOpenMenuId(null); setMenuPosition(null); }}>
+            View Dependencies
           </button>
-          <a
-            href={getDownloadUrl(projectName!, packageName!, t.name)}
-            className="btn btn-secondary btn-small"
-            download
-          >
-            Download
-          </a>
         </div>
-      ),
-    },
-  ];
+      </div>
+    );
+  };
 
   if (loading && !tagsData) {
     return <div className="loading">Loading...</div>;
@@ -451,6 +586,19 @@ function PackagePage() {
           <div className="page-header__title-row">
             <h1>{packageName}</h1>
             {pkg && <Badge variant="default">{pkg.format}</Badge>}
+            {user && canWrite && !isSystemProject && (
+              <button
+                className="btn btn-primary btn-small header-upload-btn"
+                onClick={() => setShowUploadModal(true)}
+              >
+                <svg width="14" height="14" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2" style={{ marginRight: '6px' }}>
+                  <path d="M21 15v4a2 2 0 0 1-2 2H5a2 2 0 0 1-2-2v-4" />
+                  <polyline points="17 8 12 3 7 8" />
+                  <line x1="12" y1="3" x2="12" y2="15" />
+                </svg>
+                Upload
+              </button>
+            )}
           </div>
           {pkg?.description && <p className="description">{pkg.description}</p>}
           <div className="page-header__meta">
@@ -468,14 +616,14 @@ function PackagePage() {
           </div>
           {pkg && (pkg.tag_count !== undefined || pkg.artifact_count !== undefined) && (
             <div className="package-header-stats">
-              {pkg.tag_count !== undefined && (
+              {!isSystemProject && pkg.tag_count !== undefined && (
                 <span className="stat-item">
                   <strong>{pkg.tag_count}</strong> tags
                 </span>
               )}
               {pkg.artifact_count !== undefined && (
                 <span className="stat-item">
-                  <strong>{pkg.artifact_count}</strong> artifacts
+                  <strong>{pkg.artifact_count}</strong> {isSystemProject ? 'versions' : 'artifacts'}
                 </span>
               )}
               {pkg.total_size !== undefined && pkg.total_size > 0 && (
@@ -483,7 +631,7 @@ function PackagePage() {
                   <strong>{formatBytes(pkg.total_size)}</strong> total
                 </span>
               )}
-              {pkg.latest_tag && (
+              {!isSystemProject && pkg.latest_tag && (
                 <span className="stat-item">
                   Latest: <strong className="accent">{pkg.latest_tag}</strong>
                 </span>
@@ -496,44 +644,9 @@ function PackagePage() {
       {error && <div className="error-message">{error}</div>}
       {uploadSuccess && <div className="success-message">{uploadSuccess}</div>}
 
-      {user && (
-        <div className="upload-section card">
-          <h3>Upload Artifact</h3>
-          {canWrite ? (
-            <div className="upload-form">
-              <div className="form-group">
-                <label htmlFor="upload-tag">Tag (optional)</label>
-                <input
-                  id="upload-tag"
-                  type="text"
-                  value={uploadTag}
-                  onChange={(e) => setUploadTag(e.target.value)}
-                  placeholder="v1.0.0, latest, stable..."
-                />
-              </div>
-              <DragDropUpload
-                projectName={projectName!}
-                packageName={packageName!}
-                tag={uploadTag || undefined}
-                onUploadComplete={handleUploadComplete}
-                onUploadError={handleUploadError}
-              />
-            </div>
-          ) : (
-            <DragDropUpload
-              projectName={projectName!}
-              packageName={packageName!}
-              disabled={true}
-              disabledReason="You have read-only access to this project and cannot upload artifacts."
-              onUploadComplete={handleUploadComplete}
-              onUploadError={handleUploadError}
-            />
-          )}
-        </div>
-      )}
 
       <div className="section-header">
-        <h2>Tags / Versions</h2>
+        <h2>{isSystemProject ? 'Versions' : 'Tags / Versions'}</h2>
       </div>
 
       <div className="list-controls">
@@ -577,110 +690,6 @@ function PackagePage() {
         />
       )}
 
-      {/* Dependencies Section */}
-      {tags.length > 0 && (
-        <div className="dependencies-section card">
-          <div className="dependencies-header">
-            <h3>Dependencies</h3>
-            <div className="dependencies-controls">
-              {selectedTag && (
-                <>
-                  <button
-                    className="btn btn-secondary btn-small"
-                    onClick={fetchEnsureFile}
-                    disabled={ensureFileLoading}
-                    title="View orchard.ensure file"
-                  >
-                    <svg width="14" height="14" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2" style={{ marginRight: '6px' }}>
-                      <path d="M14 2H6a2 2 0 0 0-2 2v16a2 2 0 0 0 2 2h12a2 2 0 0 0 2-2V8z"></path>
-                      <polyline points="14 2 14 8 20 8"></polyline>
-                      <line x1="16" y1="13" x2="8" y2="13"></line>
-                      <line x1="16" y1="17" x2="8" y2="17"></line>
-                      <polyline points="10 9 9 9 8 9"></polyline>
-                    </svg>
-                    {ensureFileLoading ? 'Loading...' : 'View Ensure File'}
-                  </button>
-                  <button
-                    className="btn btn-secondary btn-small"
-                    onClick={() => setShowGraph(true)}
-                    title="View full dependency tree"
-                  >
-                    <svg width="14" height="14" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2" style={{ marginRight: '6px' }}>
-                      <circle cx="12" cy="12" r="3"></circle>
-                      <circle cx="4" cy="4" r="2"></circle>
-                      <circle cx="20" cy="4" r="2"></circle>
-                      <circle cx="4" cy="20" r="2"></circle>
-                      <circle cx="20" cy="20" r="2"></circle>
-                      <line x1="9.5" y1="9.5" x2="5.5" y2="5.5"></line>
-                      <line x1="14.5" y1="9.5" x2="18.5" y2="5.5"></line>
-                      <line x1="9.5" y1="14.5" x2="5.5" y2="18.5"></line>
-                      <line x1="14.5" y1="14.5" x2="18.5" y2="18.5"></line>
-                    </svg>
-                    View Graph
-                  </button>
-                </>
-              )}
-            </div>
-          </div>
-          <div className="dependencies-tag-select">
-            {selectedTag && (
-              <select
-                className="tag-selector"
-                value={selectedTag.id}
-                onChange={(e) => {
-                  const tag = tags.find(t => t.id === e.target.value);
-                  if (tag) setSelectedTag(tag);
-                }}
-              >
-                {tags.map(t => (
-                  <option key={t.id} value={t.id}>
-                    {t.name}{t.version ? ` (${t.version})` : ''}
-                  </option>
-                ))}
-              </select>
-            )}
-          </div>
-
-          {depsLoading ? (
-            <div className="deps-loading">Loading dependencies...</div>
-          ) : depsError ? (
-            <div className="deps-error">{depsError}</div>
-          ) : dependencies.length === 0 ? (
-            <div className="deps-empty">
-              {selectedTag ? (
-                <span><strong>{selectedTag.name}</strong> has no dependencies</span>
-              ) : (
-                <span>No dependencies</span>
-              )}
-            </div>
-          ) : (
-            <div className="deps-list">
-              <div className="deps-summary">
-                <strong>{selectedTag?.name}</strong> has {dependencies.length} {dependencies.length === 1 ? 'dependency' : 'dependencies'}:
-              </div>
-              <ul className="deps-items">
-                {dependencies.map((dep) => (
-                  <li key={dep.id} className="dep-item">
-                    <Link
-                      to={`/project/${dep.project}/${dep.package}`}
-                      className="dep-link"
-                    >
-                      {dep.project}/{dep.package}
-                    </Link>
-                    <span className="dep-constraint">
-                      @ {dep.version || dep.tag}
-                    </span>
-                    <span className="dep-status dep-status--ok" title="Package exists">
-                      &#10003;
-                    </span>
-                  </li>
-                ))}
-              </ul>
-            </div>
-          )}
-        </div>
-      )}
-
       {/* Used By (Reverse Dependencies) Section */}
       <div className="used-by-section card">
         <h3>Used By</h3>
@@ -737,78 +746,6 @@ function PackagePage() {
         )}
       </div>
 
-      <div className="download-by-id-section card">
-        <h3>Download by Artifact ID</h3>
-        <div className="download-by-id-form">
-          <input
-            type="text"
-            value={artifactIdInput}
-            onChange={(e) => setArtifactIdInput(e.target.value.toLowerCase().replace(/[^a-f0-9]/g, '').slice(0, 64))}
-            placeholder="Enter SHA256 artifact ID (64 hex characters)"
-            className="artifact-id-input"
-          />
-          <a
-            href={artifactIdInput.length === 64 ? getDownloadUrl(projectName!, packageName!, `artifact:${artifactIdInput}`) : '#'}
-            className={`btn btn-primary ${artifactIdInput.length !== 64 ? 'btn-disabled' : ''}`}
-            download
-            onClick={(e) => {
-              if (artifactIdInput.length !== 64) {
-                e.preventDefault();
-              }
-            }}
-          >
-            Download
-          </a>
-        </div>
-        {artifactIdInput.length > 0 && artifactIdInput.length !== 64 && (
-          <p className="validation-hint">Artifact ID must be exactly 64 hex characters ({artifactIdInput.length}/64)</p>
-        )}
-      </div>
-
-      {user && canWrite && (
-        <div className="create-tag-section card">
-          <h3>Create / Update Tag</h3>
-          <p className="section-description">Point a tag at any existing artifact by its ID</p>
-          <form onSubmit={handleCreateTag} className="create-tag-form">
-            <div className="form-row">
-              <div className="form-group">
-                <label htmlFor="create-tag-name">Tag Name</label>
-                <input
-                  id="create-tag-name"
-                  type="text"
-                  value={createTagName}
-                  onChange={(e) => setCreateTagName(e.target.value)}
-                  placeholder="latest, stable, v1.0.0..."
-                  disabled={createTagLoading}
-                />
-              </div>
-              <div className="form-group form-group--wide">
-                <label htmlFor="create-tag-artifact">Artifact ID</label>
-                <input
-                  id="create-tag-artifact"
-                  type="text"
-                  value={createTagArtifactId}
-                  onChange={(e) => setCreateTagArtifactId(e.target.value.toLowerCase().replace(/[^a-f0-9]/g, '').slice(0, 64))}
-                  placeholder="SHA256 hash (64 hex characters)"
-                  className="artifact-id-input"
-                  disabled={createTagLoading}
-                />
-              </div>
-              <button
-                type="submit"
-                className="btn btn-primary"
-                disabled={createTagLoading || !createTagName.trim() || createTagArtifactId.length !== 64}
-              >
-                {createTagLoading ? 'Creating...' : 'Create Tag'}
-              </button>
-            </div>
-            {createTagArtifactId.length > 0 && createTagArtifactId.length !== 64 && (
-              <p className="validation-hint">Artifact ID must be exactly 64 hex characters ({createTagArtifactId.length}/64)</p>
-            )}
-          </form>
-        </div>
-      )}
-
       <div className="usage-section card">
         <h3>Usage</h3>
         <p>Download artifacts using:</p>
@@ -831,6 +768,118 @@ function PackagePage() {
         />
       )}
 
+      {/* Upload Modal */}
+      {showUploadModal && (
+        <div className="modal-overlay" onClick={() => setShowUploadModal(false)}>
+          <div className="upload-modal" onClick={(e) => e.stopPropagation()}>
+            <div className="modal-header">
+              <h3>Upload Artifact</h3>
+              <button
+                className="modal-close"
+                onClick={() => setShowUploadModal(false)}
+                title="Close"
+              >
+                <svg width="20" height="20" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2">
+                  <line x1="18" y1="6" x2="6" y2="18"></line>
+                  <line x1="6" y1="6" x2="18" y2="18"></line>
+                </svg>
+              </button>
+            </div>
+            <div className="modal-body">
+              <div className="form-group">
+                <label htmlFor="upload-tag">Tag (optional)</label>
+                <input
+                  id="upload-tag"
+                  type="text"
+                  value={uploadTag}
+                  onChange={(e) => setUploadTag(e.target.value)}
+                  placeholder="v1.0.0, latest, stable..."
+                />
+              </div>
+              <DragDropUpload
+                projectName={projectName!}
+                packageName={packageName!}
+                tag={uploadTag || undefined}
+                onUploadComplete={(result) => {
+                  handleUploadComplete(result);
+                  setShowUploadModal(false);
+                  setUploadTag('');
+                }}
+                onUploadError={handleUploadError}
+              />
+            </div>
+          </div>
+        </div>
+      )}
+
+      {/* Create/Update Tag Modal */}
+      {showCreateTagModal && (
+        <div className="modal-overlay" onClick={() => setShowCreateTagModal(false)}>
+          <div className="create-tag-modal" onClick={(e) => e.stopPropagation()}>
+            <div className="modal-header">
+              <h3>Create / Update Tag</h3>
+              <button
+                className="modal-close"
+                onClick={() => { setShowCreateTagModal(false); setCreateTagName(''); setCreateTagArtifactId(''); }}
+                title="Close"
+              >
+                <svg width="20" height="20" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2">
+                  <line x1="18" y1="6" x2="6" y2="18"></line>
+                  <line x1="6" y1="6" x2="18" y2="18"></line>
+                </svg>
+              </button>
+            </div>
+            <div className="modal-body">
+              <p className="modal-description">Point a tag at an artifact by its ID</p>
+              <form onSubmit={(e) => { handleCreateTag(e); setShowCreateTagModal(false); }}>
+                <div className="form-group">
+                  <label htmlFor="modal-tag-name">Tag Name</label>
+                  <input
+                    id="modal-tag-name"
+                    type="text"
+                    value={createTagName}
+                    onChange={(e) => setCreateTagName(e.target.value)}
+                    placeholder="latest, stable, v1.0.0..."
+                    disabled={createTagLoading}
+                  />
+                </div>
+                <div className="form-group">
+                  <label htmlFor="modal-artifact-id">Artifact ID</label>
+                  <input
+                    id="modal-artifact-id"
+                    type="text"
+                    value={createTagArtifactId}
+                    onChange={(e) => setCreateTagArtifactId(e.target.value.toLowerCase().replace(/[^a-f0-9]/g, '').slice(0, 64))}
+                    placeholder="SHA256 hash (64 hex characters)"
+                    className="artifact-id-input"
+                    disabled={createTagLoading}
+                  />
+                  {createTagArtifactId.length > 0 && createTagArtifactId.length !== 64 && (
+                    <p className="validation-hint">{createTagArtifactId.length}/64 characters</p>
+                  )}
+                </div>
+                <div className="modal-actions">
+                  <button
+                    type="button"
+                    className="btn btn-secondary"
+                    onClick={() => { setShowCreateTagModal(false); setCreateTagName(''); setCreateTagArtifactId(''); }}
+                  >
+                    Cancel
+                  </button>
+                  <button
+                    type="submit"
+                    className="btn btn-primary"
+                    disabled={createTagLoading || !createTagName.trim() || createTagArtifactId.length !== 64}
+                  >
+                    {createTagLoading ? 'Creating...' : 'Create Tag'}
+                  </button>
+                </div>
+              </form>
+            </div>
+          </div>
+        </div>
+      )}
+
       {/* Ensure File Modal */}
       {showEnsureFile && (
         <div className="modal-overlay" onClick={() => setShowEnsureFile(false)}>
@@ -872,6 +921,107 @@ function PackagePage() {
           </div>
         </div>
       )}
+
+      {/* Dependencies Modal */}
+      {showDepsModal && selectedTag && (
+        <div className="modal-overlay" onClick={() => setShowDepsModal(false)}>
+          <div className="deps-modal" onClick={(e) => e.stopPropagation()}>
+            <div className="modal-header">
+              <h3>Dependencies for {selectedTag.version || selectedTag.name}</h3>
+              <button
+                className="modal-close"
+                onClick={() => setShowDepsModal(false)}
+                title="Close"
+              >
+                <svg width="20" height="20" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2">
+                  <line x1="18" y1="6" x2="6" y2="18"></line>
+                  <line x1="6" y1="6" x2="18" y2="18"></line>
+                </svg>
+              </button>
+            </div>
+            <div className="modal-body">
+              <div className="deps-modal-controls">
+                <button
+                  className="btn btn-secondary btn-small"
+                  onClick={fetchEnsureFile}
+                  disabled={ensureFileLoading}
+                >
+                  View Ensure File
+                </button>
+                <button
+                  className="btn btn-secondary btn-small"
+                  onClick={() => { setShowDepsModal(false); setShowGraph(true); }}
+                >
+                  View Graph
+                </button>
+              </div>
+              {depsLoading ? (
+                <div className="deps-loading">Loading dependencies...</div>
+              ) : depsError ? (
+                <div className="deps-error">{depsError}</div>
+              ) : dependencies.length === 0 ? (
+                <div className="deps-empty">No dependencies</div>
+              ) : (
+                <div className="deps-list">
+                  <div className="deps-summary">
+                    {dependencies.length} {dependencies.length === 1 ? 'dependency' : 'dependencies'}:
+                  </div>
+                  <ul className="deps-items">
+                    {dependencies.map((dep) => (
+                      <li key={dep.id} className="dep-item">
+                        <Link
+                          to={`/project/${dep.project}/${dep.package}`}
+                          className="dep-link"
+                          onClick={() => setShowDepsModal(false)}
+                        >
+                          {dep.project}/{dep.package}
+                        </Link>
+                        <span className="dep-constraint">
+                          @ {dep.version || dep.tag}
+                        </span>
+                        <span className="dep-status dep-status--ok" title="Package exists">
+                          &#10003;
+                        </span>
+                      </li>
+                    ))}
+                  </ul>
+                </div>
+              )}
+            </div>
+          </div>
+        </div>
+      )}
+
+      {/* Artifact ID Modal */}
+      {showArtifactIdModal && viewArtifactId && (
+        <div className="modal-overlay" onClick={() => setShowArtifactIdModal(false)}>
+          <div className="artifact-id-modal" onClick={(e) => e.stopPropagation()}>
+            <div className="modal-header">
+              <h3>Artifact ID</h3>
+              <button
+                className="modal-close"
+                onClick={() => setShowArtifactIdModal(false)}
+                title="Close"
+              >
+                <svg width="20" height="20" viewBox="0 0 24 24" fill="none" stroke="currentColor" strokeWidth="2">
+                  <line x1="18" y1="6" x2="6" y2="18"></line>
+                  <line x1="6" y1="6" x2="18" y2="18"></line>
+                </svg>
+              </button>
+            </div>
+            <div className="modal-body">
+              <p className="modal-description">SHA256 hash identifying this artifact:</p>
+              <div className="artifact-id-display">
+                <code>{viewArtifactId}</code>
+                <CopyButton text={viewArtifactId} />
+              </div>
+            </div>
+          </div>
+        </div>
+      )}
+
+      {/* Action Menu Dropdown */}
+      {renderActionMenu()}
     </div>
   );
 }

frontend/src/pages/ProjectPage.tsx

@@ -214,7 +214,7 @@ function ProjectPage() {
           </div>
         </div>
         <div className="page-header__actions">
-          {canAdmin && !project.team_id && (
+          {canAdmin && !project.team_id && !project.is_system && (
             <button
               className="btn btn-secondary"
               onClick={() => navigate(`/project/${projectName}/settings`)}
@@ -227,11 +227,11 @@ function ProjectPage() {
               Settings
             </button>
           )}
-          {canWrite ? (
+          {canWrite && !project.is_system ? (
             <button className="btn btn-primary" onClick={() => setShowForm(!showForm)}>
               {showForm ? 'Cancel' : '+ New Package'}
             </button>
-          ) : user ? (
+          ) : user && !project.is_system ? (
             <span className="text-muted" title="You have read-only access to this project">
               Read-only access
             </span>
@@ -294,18 +294,20 @@ function ProjectPage() {
           placeholder="Filter packages..."
           className="list-controls__search"
         />
-        <select
-          className="list-controls__select"
-          value={format}
-          onChange={(e) => handleFormatChange(e.target.value)}
-        >
-          <option value="">All formats</option>
-          {FORMAT_OPTIONS.map((f) => (
-            <option key={f} value={f}>
-              {f}
-            </option>
-          ))}
-        </select>
+        {!project?.is_system && (
+          <select
+            className="list-controls__select"
+            value={format}
+            onChange={(e) => handleFormatChange(e.target.value)}
+          >
+            <option value="">All formats</option>
+            {FORMAT_OPTIONS.map((f) => (
+              <option key={f} value={f}>
+                {f}
+              </option>
+            ))}
+          </select>
+        )}
       </div>
 
       {hasActiveFilters && (
@@ -341,19 +343,19 @@ function ProjectPage() {
               className: 'cell-description',
               render: (pkg) => pkg.description || '—',
             },
-            {
+            ...(!project?.is_system ? [{
               key: 'format',
               header: 'Format',
-              render: (pkg) => <Badge variant="default">{pkg.format}</Badge>,
-            },
-            {
+              render: (pkg: Package) => <Badge variant="default">{pkg.format}</Badge>,
+            }] : []),
+            ...(!project?.is_system ? [{
               key: 'tag_count',
               header: 'Tags',
-              render: (pkg) => pkg.tag_count ?? '—',
-            },
+              render: (pkg: Package) => pkg.tag_count ?? '—',
+            }] : []),
             {
               key: 'artifact_count',
-              header: 'Artifacts',
+              header: project?.is_system ? 'Versions' : 'Artifacts',
               render: (pkg) => pkg.artifact_count ?? '—',
             },
             {
@@ -362,12 +364,12 @@ function ProjectPage() {
               render: (pkg) =>
                 pkg.total_size !== undefined && pkg.total_size > 0 ? formatBytes(pkg.total_size) : '—',
             },
-            {
+            ...(!project?.is_system ? [{
               key: 'latest_tag',
               header: 'Latest',
-              render: (pkg) =>
+              render: (pkg: Package) =>
                 pkg.latest_tag ? <strong style={{ color: 'var(--accent-primary)' }}>{pkg.latest_tag}</strong> : '—',
-            },
+            }] : []),
             {
               key: 'created_at',
               header: 'Created',

frontend/src/types.ts

@@ -433,6 +433,13 @@ export interface ResolvedArtifact {
   download_url: string;
 }
 
+export interface MissingDependency {
+  project: string;
+  package: string;
+  constraint: string | null;
+  required_by: string | null;
+}
+
 export interface DependencyResolutionResponse {
   requested: {
     project: string;
@@ -440,6 +447,7 @@ export interface DependencyResolutionResponse {
     ref: string;
   };
   resolved: ResolvedArtifact[];
+  missing: MissingDependency[];
   total_size: number;
   artifact_count: number;
 }

helm/orchard/templates/deployment.yaml

@@ -144,6 +144,20 @@ spec:
             - name: ORCHARD_DATABASE_POOL_TIMEOUT
               value: {{ .Values.orchard.database.poolTimeout | quote }}
             {{- end }}
+            {{- if .Values.orchard.pypiCache }}
+            {{- if .Values.orchard.pypiCache.workers }}
+            - name: ORCHARD_PYPI_CACHE_WORKERS
+              value: {{ .Values.orchard.pypiCache.workers | quote }}
+            {{- end }}
+            {{- if .Values.orchard.pypiCache.maxDepth }}
+            - name: ORCHARD_PYPI_CACHE_MAX_DEPTH
+              value: {{ .Values.orchard.pypiCache.maxDepth | quote }}
+            {{- end }}
+            {{- if .Values.orchard.pypiCache.maxAttempts }}
+            - name: ORCHARD_PYPI_CACHE_MAX_ATTEMPTS
+              value: {{ .Values.orchard.pypiCache.maxAttempts | quote }}
+            {{- end }}
+            {{- end }}
             {{- if .Values.orchard.auth }}
             {{- if or .Values.orchard.auth.secretsManager .Values.orchard.auth.existingSecret .Values.orchard.auth.adminPassword }}
             - name: ORCHARD_ADMIN_PASSWORD

helm/orchard/values-dev.yaml

@@ -59,10 +59,10 @@ ingress:
 resources:
   limits:
     cpu: 500m
-    memory: 512Mi
+    memory: 1Gi
   requests:
     cpu: 200m
-    memory: 512Mi
+    memory: 1Gi
 
 livenessProbe:
   httpGet:
@@ -124,6 +124,12 @@ orchard:
     mode: "presigned"
     presignedUrlExpiry: 3600
 
+  # PyPI Cache Worker settings (reduced workers to limit memory usage)
+  pypiCache:
+    workers: 1
+    maxDepth: 10
+    maxAttempts: 3
+
   # Relaxed rate limits for dev/feature environments (allows integration tests to run)
   rateLimit:
     login: "1000/minute"  # Default is 5/minute, relaxed for CI integration tests

helm/orchard/values-prod.yaml

@@ -57,10 +57,10 @@ ingress:
 resources:
   limits:
     cpu: 500m
-    memory: 512Mi
+    memory: 768Mi
   requests:
     cpu: 500m
-    memory: 512Mi
+    memory: 768Mi
 
 livenessProbe:
   httpGet:
@@ -121,6 +121,12 @@ orchard:
     mode: "presigned"
     presignedUrlExpiry: 3600
 
+  # PyPI Cache Worker settings (reduced workers to limit memory usage)
+  pypiCache:
+    workers: 2
+    maxDepth: 10
+    maxAttempts: 3
+
 # PostgreSQL subchart - disabled in prod, using RDS
 postgresql:
   enabled: false

helm/orchard/values-stage.yaml

@@ -56,10 +56,10 @@ ingress:
 resources:
   limits:
     cpu: 500m
-    memory: 512Mi
+    memory: 768Mi
   requests:
     cpu: 500m
-    memory: 512Mi
+    memory: 768Mi
 
 livenessProbe:
   httpGet:
@@ -122,6 +122,12 @@ orchard:
     mode: "presigned"  # presigned, redirect, or proxy
     presignedUrlExpiry: 3600  # Presigned URL expiry in seconds
 
+  # PyPI Cache Worker settings (reduced workers to limit memory usage)
+  pypiCache:
+    workers: 2
+    maxDepth: 10
+    maxAttempts: 3
+
   # Relaxed rate limits for stage (allows CI integration tests to run)
   rateLimit:
     login: "1000/minute"  # Default is 5/minute, relaxed for CI integration tests

helm/orchard/values.yaml

@@ -54,10 +54,10 @@ ingress:
 resources:
   limits:
     cpu: 500m
-    memory: 512Mi
+    memory: 768Mi
   requests:
     cpu: 500m
-    memory: 512Mi
+    memory: 768Mi
 
 livenessProbe:
   httpGet:
@@ -120,6 +120,12 @@ orchard:
     mode: "presigned"  # presigned, redirect, or proxy
     presignedUrlExpiry: 3600  # Presigned URL expiry in seconds
 
+  # PyPI Cache Worker settings
+  pypiCache:
+    workers: 2  # Number of concurrent cache workers (reduced to limit memory usage)
+    maxDepth: 10  # Maximum recursion depth for dependency caching
+    maxAttempts: 3  # Maximum retry attempts for failed cache tasks
+
   # Authentication settings
   auth:
     # Option 1: Plain admin password (creates K8s secret)

migrations/011_pypi_cache_tasks.sql

@@ -0,0 +1,55 @@
+-- Migration: 011_pypi_cache_tasks
+-- Description: Add table for tracking PyPI dependency caching tasks
+-- Date: 2026-02-02
+
+-- Table for tracking PyPI cache tasks with retry support
+CREATE TABLE pypi_cache_tasks (
+    id UUID PRIMARY KEY DEFAULT gen_random_uuid(),
+
+    -- What to cache
+    package_name VARCHAR(255) NOT NULL,
+    version_constraint VARCHAR(255),
+
+    -- Origin tracking
+    parent_task_id UUID REFERENCES pypi_cache_tasks(id) ON DELETE SET NULL,
+    depth INTEGER NOT NULL DEFAULT 0,
+    triggered_by_artifact VARCHAR(64) REFERENCES artifacts(id) ON DELETE SET NULL,
+
+    -- Status
+    status VARCHAR(20) NOT NULL DEFAULT 'pending',
+    attempts INTEGER NOT NULL DEFAULT 0,
+    max_attempts INTEGER NOT NULL DEFAULT 3,
+
+    -- Results
+    cached_artifact_id VARCHAR(64) REFERENCES artifacts(id) ON DELETE SET NULL,
+    error_message TEXT,
+
+    -- Timing
+    created_at TIMESTAMP WITH TIME ZONE NOT NULL DEFAULT NOW(),
+    started_at TIMESTAMP WITH TIME ZONE,
+    completed_at TIMESTAMP WITH TIME ZONE,
+    next_retry_at TIMESTAMP WITH TIME ZONE,
+
+    -- Constraints
+    CONSTRAINT check_task_status CHECK (status IN ('pending', 'in_progress', 'completed', 'failed')),
+    CONSTRAINT check_depth_non_negative CHECK (depth >= 0),
+    CONSTRAINT check_attempts_non_negative CHECK (attempts >= 0)
+);
+
+-- Index for finding tasks ready to process (pending with retry time passed)
+CREATE INDEX idx_pypi_cache_tasks_status_retry ON pypi_cache_tasks(status, next_retry_at);
+
+-- Index for deduplication check (is this package already queued?)
+CREATE INDEX idx_pypi_cache_tasks_package_status ON pypi_cache_tasks(package_name, status);
+
+-- Index for tracing dependency chains
+CREATE INDEX idx_pypi_cache_tasks_parent ON pypi_cache_tasks(parent_task_id);
+
+-- Index for finding tasks by artifact that triggered them
+CREATE INDEX idx_pypi_cache_tasks_triggered_by ON pypi_cache_tasks(triggered_by_artifact);
+
+-- Index for finding tasks by cached artifact
+CREATE INDEX idx_pypi_cache_tasks_cached_artifact ON pypi_cache_tasks(cached_artifact_id);
+
+-- Index for sorting by depth and creation time (processing order)
+CREATE INDEX idx_pypi_cache_tasks_depth_created ON pypi_cache_tasks(depth, created_at);