pybiolib 1.1.1930__py3-none-any.whl → 1.1.1942__py3-none-any.whl

biolib/_internal/http_client.py

@@ -94,7 +94,7 @@ class HttpClient:
         if timeout_in_seconds is None:
             timeout_in_seconds = 60 if isinstance(data, dict) else 180  # TODO: Calculate timeout based on data size
 
-        last_error: Optional[urllib.error.URLError] = None
+        last_error: Optional[Exception] = None
         for retry_count in range(retries + 1):
             if retry_count > 0:
                 time.sleep(5 * retry_count)
@@ -108,20 +108,29 @@ class HttpClient:
                     return HttpResponse(response, response_path)
 
             except urllib.error.HTTPError as error:
-                if error.code == 502:
-                    logger_no_user_data.debug(f'HTTP {method} request failed with status 502 for "{url}"')
+                if error.code == 429:
+                    logger_no_user_data.warning(f'HTTP {method} request failed with status 429 for "{url}"')
+                    last_error = error
+                elif error.code == 502:
+                    logger_no_user_data.warning(f'HTTP {method} request failed with status 502 for "{url}"')
                     last_error = error
                 elif error.code == 503:
-                    logger_no_user_data.debug(f'HTTP {method} request failed with status 503 for "{url}"')
+                    logger_no_user_data.warning(f'HTTP {method} request failed with status 503 for "{url}"')
+                    last_error = error
+                elif error.code == 504:
+                    logger_no_user_data.warning(f'HTTP {method} request failed with status 504 for "{url}"')
                     last_error = error
                 else:
                     raise HttpError(error) from None
 
             except urllib.error.URLError as error:
                 if isinstance(error.reason, socket.timeout):
-                    logger_no_user_data.debug(f'HTTP {method} request failed with read timeout for "{url}"')
+                    logger_no_user_data.warning(f'HTTP {method} request failed with read timeout for "{url}"')
                     last_error = error
                 else:
                     raise error
+            except socket.timeout as error:
+                logger_no_user_data.warning(f'HTTP {method} request failed with read timeout for "{url}"')
+                last_error = error
 
         raise last_error or Exception(f'HTTP {method} request failed after {retries} retries for "{url}"')

biolib/_internal/runtime.py

@@ -1,4 +1,5 @@
 import json
+import re
 
 from biolib import api
 from biolib.typing_utils import Optional, TypedDict, cast
@@ -45,6 +46,17 @@ class Runtime:
     def get_app_uri() -> str:
         return Runtime._get_job_data()['app_uri']
 
+    @staticmethod
+    def get_secret(secret_name: str) -> bytes:
+        assert re.match(
+            '^[a-zA-Z0-9_-]*$', secret_name
+        ), 'Secret name can only contain alphanumeric characters and dashes or underscores '
+        try:
+            with open(f'/biolib/secrets/{secret_name}', 'rb') as file:
+                return file.read()
+        except BaseException as error:
+            raise BioLibRuntimeError(f'Unable to get system secret: {secret_name}') from error
+
     @staticmethod
     def set_main_result_prefix(result_prefix: str) -> None:
         job_data = Runtime._get_job_data()

{pybiolib-1.1.1930.dist-info → pybiolib-1.1.1942.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: pybiolib
-Version: 1.1.1930
+Version: 1.1.1942
 Summary: BioLib Python Client
 Home-page: https://github.com/biolib
 License: MIT

{pybiolib-1.1.1930.dist-info → pybiolib-1.1.1942.dist-info}/RECORD

@@ -5,9 +5,9 @@ biolib/_internal/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,
 biolib/_internal/data_record/__init__.py,sha256=1Bk303i3rFet9veS56fIsrBYtT5X3n9vcsYMA6T6c5o,36
 biolib/_internal/data_record/data_record.py,sha256=ctijrrZ-LfUxtwzS8PEVa1VBuBLVWEhmo2yHcEDkC0A,7178
 biolib/_internal/data_record/remote_storage_endpoint.py,sha256=LPq8Lr5FhKF9_o5K-bUdT7TeLe5XFUD0AAeTkNEVZug,1133
-biolib/_internal/http_client.py,sha256=38PHvRkqdjcOgRXkWU7UoYCQxHMX0eKpuwKhudDupII,4525
+biolib/_internal/http_client.py,sha256=DdooXei93JKGYGV4aQmzue_oFzvHkozg2UCxgk9dfDM,5081
 biolib/_internal/push_application.py,sha256=H1PGNtVJ0vRC0li39gFMpPpjm6QeZ8Ob-7cLkLmxS_Y,10009
-biolib/_internal/runtime.py,sha256=Ey8_3FqL8Fi3Wrb7OyLi5WrtShOs6zLbFfpzANfJRcE,2569
+biolib/_internal/runtime.py,sha256=BnFvRWYnxPXCgOtfxupN255Zxx9Gw6oPZyzUIGODw3k,3060
 biolib/_internal/utils/__init__.py,sha256=p5vsIFyu-zYqBgdSMfwW9NC_jk7rXvvCbV4Bzd3As7c,630
 biolib/api/__init__.py,sha256=iIO8ZRdn7YDhY5cR47-Wo1YsNOK8H6RN6jn8yor5WJI,137
 biolib/api/client.py,sha256=MtDkH2Amr2Fko-bCR5DdookJu0yZ1q-6K_PPg4KK_Ek,2941
@@ -105,8 +105,8 @@ biolib/utils/cache_state.py,sha256=u256F37QSRIVwqKlbnCyzAX4EMI-kl6Dwu6qwj-Qmag,3
 biolib/utils/multipart_uploader.py,sha256=XvGP1I8tQuKhAH-QugPRoEsCi9qvbRk-DVBs5PNwwJo,8452
 biolib/utils/seq_util.py,sha256=jC5WhH63FTD7SLFJbxQGA2hOt9NTwq9zHl_BEec1Z0c,4907
 biolib/utils/zip/remote_zip.py,sha256=0wErYlxir5921agfFeV1xVjf29l9VNgGQvNlWOlj2Yc,23232
-pybiolib-1.1.1930.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
-pybiolib-1.1.1930.dist-info/METADATA,sha256=BlEgckvjAEfYABN4vIL1RtDQ_TVjIKb7pVPMXWGjl_s,1508
-pybiolib-1.1.1930.dist-info/WHEEL,sha256=sP946D7jFCHeNz5Iq4fL4Lu-PrWrFsgfLXbbkciIZwg,88
-pybiolib-1.1.1930.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
-pybiolib-1.1.1930.dist-info/RECORD,,
+pybiolib-1.1.1942.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
+pybiolib-1.1.1942.dist-info/METADATA,sha256=Pwe_8XEyKXVlgndcOctndELApx5t-8KLDuAc3EJFDis,1508
+pybiolib-1.1.1942.dist-info/WHEEL,sha256=sP946D7jFCHeNz5Iq4fL4Lu-PrWrFsgfLXbbkciIZwg,88
+pybiolib-1.1.1942.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
+pybiolib-1.1.1942.dist-info/RECORD,,