pybiolib 1.2.111__py3-none-any.whl → 1.2.115.dev1__py3-none-any.whl

biolib/biolib_binary_format/utils.py

@@ -1,9 +1,10 @@
-from abc import ABC, abstractmethod
 import io
 import math
-from typing import Optional, Callable
-from biolib.typing_utils import Iterator
+from abc import ABC, abstractmethod
+from typing import Callable, Optional
+
 from biolib._internal.http_client import HttpClient
+from biolib.typing_utils import Iterator
 
 
 class RemoteEndpoint(ABC):
@@ -13,7 +14,6 @@ class RemoteEndpoint(ABC):
 
 
 class IndexableBuffer(ABC):
-
     def __init__(self):
         self.pointer = 0
 
@@ -44,7 +44,6 @@ class IndexableBuffer(ABC):
 
 
 class LocalFileIndexableBuffer(IndexableBuffer):
-
     def __init__(self, filename: str):
         super().__init__()
         self._filehandle = open(filename, 'rb')
@@ -66,7 +65,6 @@ class LocalFileIndexableBuffer(IndexableBuffer):
 
 
 class RemoteIndexableBuffer(IndexableBuffer):
-
     def __init__(self, endpoint: RemoteEndpoint):
         super().__init__()
         self._endpoint = endpoint
@@ -92,7 +90,6 @@ class RemoteIndexableBuffer(IndexableBuffer):
 
 
 class InMemoryIndexableBuffer(IndexableBuffer):
-
     def __init__(self, data: bytes):
         super().__init__()
         self._buffer = data
@@ -107,14 +104,13 @@ class InMemoryIndexableBuffer(IndexableBuffer):
 
 
 class LazyLoadedFile:
-
     def __init__(
-            self,
-            path: str,
-            buffer: IndexableBuffer,
-            start: Optional[int],
-            length: int,
-            start_func: Optional[Callable[[], int]] = None,
+        self,
+        path: str,
+        buffer: IndexableBuffer,
+        start: Optional[int],
+        length: int,
+        start_func: Optional[Callable[[], int]] = None,
     ):
         self._path = path
         self._buffer = buffer
@@ -152,10 +148,7 @@ class LazyLoadedFile:
         start_offset = start + self.start
         # make sure length doesn't go outside file boundaries
         length_to_end_of_file = max(self._length - start, 0)
-        if length is None:
-            length_to_request = length_to_end_of_file
-        else:
-            length_to_request = min(length, length_to_end_of_file)
+        length_to_request = length_to_end_of_file if length is None else min(length, length_to_end_of_file)
         return self._buffer.get_data(start=start_offset, length=length_to_request)
 
     def get_data_iterator(self) -> Iterator[bytes]:
@@ -165,7 +158,9 @@ class LazyLoadedFile:
             chunk_size = 10_000_000
             chunks_to_yield = math.ceil(self._length / chunk_size)
             for chunk_idx in range(chunks_to_yield - 1):
-                yield self._buffer.get_data(start=self.start+chunk_idx*chunk_size, length=chunk_size)
-            data_already_yielded = (chunks_to_yield - 1)*chunk_size
-            yield self._buffer.get_data(start=self.start+data_already_yielded,
-                                        length=self._length - data_already_yielded)
+                yield self._buffer.get_data(start=self.start + chunk_idx * chunk_size, length=chunk_size)
+
+            data_already_yielded = (chunks_to_yield - 1) * chunk_size
+            yield self._buffer.get_data(
+                start=self.start + data_already_yielded, length=self._length - data_already_yielded
+            )

{pybiolib-1.2.111.dist-info → pybiolib-1.2.115.dev1.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: pybiolib
-Version: 1.2.111
+Version: 1.2.115.dev1
 Summary: BioLib Python Client
 Home-page: https://github.com/biolib
 License: MIT

{pybiolib-1.2.111.dist-info → pybiolib-1.2.115.dev1.dist-info}/RECORD

@@ -53,7 +53,7 @@ biolib/biolib_binary_format/saved_job.py,sha256=nFHVFRNTNcAFGODLSiBntCtMk55QKwre
 biolib/biolib_binary_format/stdout_and_stderr.py,sha256=WfUUJFFCBrtfXjuWIaRPiWCpuBLxfko68oxoTKhrwx8,1023
 biolib/biolib_binary_format/system_exception.py,sha256=T3iL4_cSHAHim3RSDPS8Xyb1mfteaJBZonSXuRltc28,853
 biolib/biolib_binary_format/system_status_update.py,sha256=aOELuQ0k-GtpaZTUxYd0GFomP_OInmrK585y6fuQuKE,1191
-biolib/biolib_binary_format/utils.py,sha256=ra_plrh_Z10u98O2gW9uW2qzscQZCfq91SOznmDTY64,5170
+biolib/biolib_binary_format/utils.py,sha256=JflE3m2QTJtXf9AhsHl-UagjHH6Yl6QWGkabyTGlQ3U,5087
 biolib/biolib_docker_client/__init__.py,sha256=aBfA6mtWSI5dBEfNNMD6bIZzCPloW4ghKm0wqQiljdo,1481
 biolib/biolib_download_container.py,sha256=8TmBV8iv3bCvkNlHa1SSsc4zl0wX_eaxhfnW5rvFIh8,1779
 biolib/biolib_errors.py,sha256=5m4lK2l39DafpoXBImEBD4EPH3ayXBX0JgtPzmGClow,689
@@ -119,8 +119,8 @@ 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=WJnU9vZdwY8RHXvzATyV80OXzyJ7w9EkG33Tna9Nr6A,5698
 biolib/utils/zip/remote_zip.py,sha256=0wErYlxir5921agfFeV1xVjf29l9VNgGQvNlWOlj2Yc,23232
-pybiolib-1.2.111.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
-pybiolib-1.2.111.dist-info/METADATA,sha256=aeFveQ_z6KQLLlNL25APEVxJ3bvLiZnQin9kh-zQgi0,1507
-pybiolib-1.2.111.dist-info/WHEEL,sha256=sP946D7jFCHeNz5Iq4fL4Lu-PrWrFsgfLXbbkciIZwg,88
-pybiolib-1.2.111.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
-pybiolib-1.2.111.dist-info/RECORD,,
+pybiolib-1.2.115.dev1.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
+pybiolib-1.2.115.dev1.dist-info/METADATA,sha256=2LcF9GxcTuCfCBqfo1E6sFlueJyfdBRTTlezjjHoGTo,1512
+pybiolib-1.2.115.dev1.dist-info/WHEEL,sha256=sP946D7jFCHeNz5Iq4fL4Lu-PrWrFsgfLXbbkciIZwg,88
+pybiolib-1.2.115.dev1.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
+pybiolib-1.2.115.dev1.dist-info/RECORD,,