pybiolib 1.2.257__py3-none-any.whl → 1.2.264__py3-none-any.whl

biolib/_internal/http_client.py

@@ -79,6 +79,7 @@ class HttpClient:
         timeout_in_seconds: Optional[int] = None,
         response_path: Optional[str] = None,
         retry_on_http_500: Optional[bool] = False,
+        max_content_length_in_bytes: Optional[int] = None,
     ) -> HttpResponse:
         if not HttpClient.ssl_context:
             HttpClient.ssl_context = _create_ssl_context()
@@ -107,6 +108,14 @@ class HttpClient:
                     context=HttpClient.ssl_context,
                     timeout=timeout_in_seconds,
                 ) as response:
+                    if max_content_length_in_bytes:
+                        content_length = response.getheader('Content-Length')
+                        if not content_length:
+                            raise ValueError('No Content-Length in response headers')
+
+                        if int(content_length) > max_content_length_in_bytes:
+                            raise ValueError(f'Content-Length exceeds {max_content_length_in_bytes} bytes')
+
                     return HttpResponse(response, response_path)
 
             except urllib.error.HTTPError as error:

biolib/compute_node/job_worker/executors/docker_executor.py

@@ -83,11 +83,14 @@ class DockerExecutor:
         try:
             job_uuid = self._options['job']['public_id']
             send_status_update = self._options['send_status_update']
+            logger_no_user_data.debug(f'Reading module input of {job_uuid}.')
             with open(module_input_path, 'rb') as fp:
-                module_input = ModuleInput(fp.read()).deserialize()
+                module_input_tmp = ModuleInput(fp.read())
+                logger_no_user_data.debug(f'Deserialing module input of {job_uuid}...')
+                module_input = module_input_tmp.deserialize()
 
             send_status_update(StatusUpdate(progress=55, log_message='Pulling images...'))
-
+            logger_no_user_data.debug(f'Pulling image for {job_uuid}.')
             self._pull()
 
             send_status_update(StatusUpdate(progress=70, log_message='Computing...'))

{pybiolib-1.2.257.dist-info → pybiolib-1.2.264.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: pybiolib
-Version: 1.2.257
+Version: 1.2.264
 Summary: BioLib Python Client
 Home-page: https://github.com/biolib
 License: MIT

{pybiolib-1.2.257.dist-info → pybiolib-1.2.264.dist-info}/RECORD

@@ -10,7 +10,7 @@ biolib/_internal/data_record/remote_storage_endpoint.py,sha256=eCptuZ4DMAPnaNCVD
 biolib/_internal/file_utils.py,sha256=4jT6j7bB21c0JNn5BfnyWQib_zt0CVtJ_TiOFOStRcE,2604
 biolib/_internal/fuse_mount/__init__.py,sha256=B_tM6RM2dBw-vbpoHJC4X3tOAaN1H2RDvqYJOw3xFwg,55
 biolib/_internal/fuse_mount/experiment_fuse_mount.py,sha256=08aUdEq_bvqLBft_gSLjOClKDy5sBnMts1RfJf7AP_U,7012
-biolib/_internal/http_client.py,sha256=C0bHqVrenT3ifZ3k0FdzBZR7ZxDXKBUG148KRxheAyk,5701
+biolib/_internal/http_client.py,sha256=_uop4dwetHA5MvmxVqGzxV9w1Zl4peRVZXFiImuL2BA,6211
 biolib/_internal/lfs/__init__.py,sha256=gSWo_xg61UniYgD7yNYxeT4I9uaXBCBSi3_nmZjnPpE,35
 biolib/_internal/lfs/cache.py,sha256=pQS2np21rdJ6I3DpoOutnzPHpLOZgUIS8TMltUJk_k4,2226
 biolib/_internal/libs/__init__.py,sha256=Jdf4tNPqe_oIIf6zYml6TiqhL_02Vyqwge6IELrAFhw,98
@@ -78,7 +78,7 @@ biolib/compute_node/job_worker/cache_state.py,sha256=MwjSRzcJJ_4jybqvBL4xdgnDYSI
 biolib/compute_node/job_worker/cache_types.py,sha256=ajpLy8i09QeQS9dEqTn3T6NVNMY_YsHQkSD5nvIHccQ,818
 biolib/compute_node/job_worker/docker_image_cache.py,sha256=ansHIkJIq_EMW1nZNlW-RRLVVeKWTbzNICYaOHpKiRE,7460
 biolib/compute_node/job_worker/executors/__init__.py,sha256=bW6t1qi3PZTlHM4quaTLa8EI4ALTCk83cqcVJfJfJfE,145
-biolib/compute_node/job_worker/executors/docker_executor.py,sha256=HiAenSATWY7DApAKSBQU74jvA-JF42x5dBV8JxQ_eQ0,28829
+biolib/compute_node/job_worker/executors/docker_executor.py,sha256=97S0FH5cmDVh9k5bMdKw_oTbhlvWNMTYHlCWsMcTVr0,29118
 biolib/compute_node/job_worker/executors/docker_types.py,sha256=VhsU1DKtJjx_BbCkVmiPZPH4ROiL1ygW1Y_s1Kbpa2o,216
 biolib/compute_node/job_worker/executors/tars/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 biolib/compute_node/job_worker/executors/types.py,sha256=yP5gG39hr-DLnw9bOE--VHi-1arDbIYiGuV1rlTbbHI,1466
@@ -120,8 +120,8 @@ 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=Ozk0blGtPur_D9MwShD02r_mphyQmgZkx-lOHOwnlIM,6730
 biolib/utils/zip/remote_zip.py,sha256=0wErYlxir5921agfFeV1xVjf29l9VNgGQvNlWOlj2Yc,23232
-pybiolib-1.2.257.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
-pybiolib-1.2.257.dist-info/METADATA,sha256=nxPz1_DHtgQxfOuCZbBy5GzPPJrqjCyZNPwBOzlTods,1558
-pybiolib-1.2.257.dist-info/WHEEL,sha256=Nq82e9rUAnEjt98J6MlVmMCZb-t9cYE2Ir1kpBmnWfs,88
-pybiolib-1.2.257.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
-pybiolib-1.2.257.dist-info/RECORD,,
+pybiolib-1.2.264.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
+pybiolib-1.2.264.dist-info/METADATA,sha256=pJKjfgwqbhssh25YE8ksBIKSVzRqJ3wFQP7UUXec854,1558
+pybiolib-1.2.264.dist-info/WHEEL,sha256=Nq82e9rUAnEjt98J6MlVmMCZb-t9cYE2Ir1kpBmnWfs,88
+pybiolib-1.2.264.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
+pybiolib-1.2.264.dist-info/RECORD,,