feat: dump OpenAPI YAML in python -m dotty.main (#100)

Pipfile

@@ -9,6 +9,7 @@ fastapi = "*"
 hgvs = "*"
 pydantic-settings = "*"
 uvicorn = "*"
+pyyaml = "*"
 
 [dev-packages]
 black = "*"

README.md

@@ -49,17 +49,8 @@ $ seqrepo --root-directory $PWD load --namespace ncbi --instance-name seqrepo nc
 $ rm -rf GRCh3?.zip ncbi_dataset
 ```
 
-## Terraform Project Management
+## Dump OpenAPI Schema
 
 ```
-$ export GITHUB_OWNER=bihealth
-$ export GITHUB_TOKEN=ghp_<thetoken>
-
-$ cd utils/terraform
-$ terraform init
-$ terraform import github_repository.dotty dotty
-$ terraform validate
-$ terraform fmt
-$ terraform plan
-$ terraform apply
+# python -m dotty.main > openapi.yaml
 ```

dotty/main.py

@@ -1,10 +1,12 @@
 import logging
+import sys
 import typing
 from contextlib import asynccontextmanager
 
 import bioutils.assemblies
 import hgvs.exceptions
 import pydantic
+import yaml
 from fastapi import FastAPI, HTTPException
 
 from dotty.config import settings
@@ -177,9 +179,11 @@ def _from_dict(assembly: str, dct: dict[str, typing.Any]) -> "Transcript":
             id=dct["id"],
             hgnc_id=f"HGNC:{dct['hgnc']}",
             hgnc_symbol=dct["gene_name"],
-            alignments=[TanscriptAlignment._from_dict(assembly, dct["genome_builds"][assembly])]
-            if assembly in dct["genome_builds"]
-            else [],
+            alignments=(
+                [TanscriptAlignment._from_dict(assembly, dct["genome_builds"][assembly])]
+                if assembly in dct["genome_builds"]
+                else []
+            ),
         )
 
 
@@ -242,3 +246,7 @@ async def find_transcripts(hgnc_id: str, assembly: Assembly = Assembly.GRCH38) -
 
             result.append(Transcript._from_dict(assembly.value, t))
         return TranscriptResult(transcripts=result)
+
+
+if __name__ == "__main__":
+    yaml.dump(app.openapi(), sys.stdout)