update several 'vlm' instances that I missed

Author: jennifer-bowser

.github/CODEOWNERS

@@ -1 +1 @@
-* @GenomicMedLab/vlm-in-a-box-maintainers
+* @GenomicMedLab/anyvlm-maintainers

Makefile

@@ -8,7 +8,7 @@
 SHELL:=/bin/bash -e -o pipefail
 SELF:=$(firstword $(MAKEFILE_LIST))
 
-PKG=vlm
+PKG=anyvlm
 PKGD=$(subst .,/,${PKG})
 PYV:=3.11
 VEDIR=venv/${PYV}

README.md

@@ -1 +1 @@
-# VLM in a Box
+# AnyVLM

src/anyvlm/__init__.py

@@ -3,7 +3,7 @@
 from importlib.metadata import PackageNotFoundError, version
 
 try:
-    __version__ = version("vlm")
+    __version__ = version("anyvlm")
 except PackageNotFoundError:
     __version__ = "unknown"
 finally:

src/anyvlm/anyvar/base_client.py

@@ -1,4 +1,4 @@
-"""Provide abstraction for a VLM-to-AnyVar connection."""
+"""Provide abstraction for a AnyVLM-to-AnyVar connection."""
 
 import abc
 

src/anyvlm/cli.py

@@ -1,4 +1,4 @@
-"""CLI for interacting with VLM instance"""
+"""CLI for interacting with AnyVLM instance"""
 
 import click
 
@@ -8,10 +8,10 @@
 @click.version_option(anyvlm.__version__)
 @click.group()
 def _cli() -> None:
-    """Manage VLM data."""
+    """Manage AnyVLM data."""
 
 
 @_cli.command()
 def ingest_vcf() -> None:
-    """Deposit variants and allele frequencies from VCF into VLM instance"""
+    """Deposit variants and allele frequencies from VCF into AnyVLM instance"""
     raise NotImplementedError

src/anyvlm/main.py

@@ -41,7 +41,7 @@ async def lifespan(app: FastAPI) -> AsyncGenerator:
 
 
 app = FastAPI(
-    title="vlm",
+    title="AnyVLM",
     description=SERVICE_DESCRIPTION,
     version=__version__,
     license={

src/anyvlm/schemas/common.py

@@ -29,18 +29,18 @@ class ServiceType(BaseModel):
     """Define service_info response for type field"""
 
     group: Literal["org.biocommons"] = "org.biocommons"
-    artifact: Literal["VLM API"] = "VLM API"
+    artifact: Literal["AnyVLM API"] = "AnyVLM API"
     version: str = __version__
 
 
-SERVICE_DESCRIPTION = "A VLM-In-A-Box instance"
+SERVICE_DESCRIPTION = "An AnyVLM instance"
 
 
 class ServiceInfo(BaseModel):
     """Define response structure for GA4GH /service_info endpoint."""
 
-    id: Literal["org.biocommons.vlm"] = "org.biocommons.vlm"
-    name: Literal["vlm"] = "vlm"
+    id: Literal["org.biocommons.anyvlm"] = "org.biocommons.anyvlm"
+    name: Literal["anyvlm"] = "anyvlm"
     type: ServiceType
     description: str = SERVICE_DESCRIPTION
     organization: ServiceOrganization