pybiolib 1.1.1629__py3-none-any.whl → 1.1.1881__py3-none-any.whl

biolib/utils/seq_util.py

@@ -1,16 +1,36 @@
-from biolib.typing_utils import List, Optional
+import re
+from io import BufferedIOBase
+from biolib.typing_utils import List, Optional, Dict, Union
 
 allowed_sequence_chars = set("ABCDEFGHIJKLMNOPQRSTUVWXYZ0123456789-_.")
+
+
 def find_invalid_sequence_characters(sequence):
     invalid_chars = [char for char in sequence if char not in allowed_sequence_chars]
     return invalid_chars
 
+
 class SeqUtilRecord:
-    def __init__(self, sequence: str, sequence_id: str, description: Optional['str']):
+    def __init__(
+            self,
+            sequence: str,
+            sequence_id: str,
+            description: Optional['str'],
+            properties: Optional[Dict[str, str]] = None,
+    ):
         self.sequence = sequence
         self.id = sequence_id  # pylint: disable=invalid-name
         self.description = description
 
+        if properties:
+            disallowed_pattern = re.compile(r"[=\[\]\n]")
+            for key, value in properties.items():
+                assert not bool(disallowed_pattern.search(key)), "Key cannot contain characters =[] and newline"
+                assert not bool(disallowed_pattern.search(value)), "Value cannot contain characters =[] and newline"
+            self.properties = properties
+        else:
+            self.properties = {}
+
     def __repr__(self) -> str:
         return f'{self.__class__.__name__} ({self.id})'
 
@@ -18,13 +38,24 @@ class SeqUtilRecord:
 class SeqUtil:
     @staticmethod
     def parse_fasta(
-        file_name: str,
-        default_header: Optional[str] = None,
-        run_validation: bool = True
+            input_file: Union[str, BufferedIOBase, None] = None,
+            default_header: Optional[str] = None,
+            allow_any_sequence_characters: bool = False,
+            allow_empty_sequence: bool = False,
+            file_name: Optional[str] = None,
     ) -> List[SeqUtilRecord]:
-        with open(file_name, 'r') as file_handle:
-            data = file_handle.read().strip()
-
+        if input_file is None:
+            if file_name:
+                input_file = file_name
+            else:
+                raise ValueError("input_file must be a file name (str) or a BufferedIOBase object")
+        if isinstance(input_file, str):
+            with open(input_file, 'r') as file_handle:
+                data = file_handle.read().strip()
+        elif isinstance(input_file, BufferedIOBase):
+            data = input_file.read().decode('utf-8')
+        else:
+            raise ValueError("input_file must be a file name (str) or a BufferedIOBase object")
         if not data:
             return []
 
@@ -61,12 +92,16 @@ class SeqUtil:
             description = sequence_data_splitted[0][len(sequence_id):].strip()
             sequence = "".join([seq.strip().upper() for seq in sequence_data_splitted[1:]])
 
-            if run_validation:
+            if not allow_any_sequence_characters:
                 invalid_sequence_characters = find_invalid_sequence_characters(sequence)
                 if len(invalid_sequence_characters) > 0:
                     raise Exception(
                         f'Error: Invalid character ("{invalid_sequence_characters[0]}") found in sequence {sequence_id}'
                     )
+            if not allow_empty_sequence and len(sequence) == 0:
+                raise Exception(
+                    f'Error: No sequence found for fasta entry {sequence_id}'
+                )
 
             parsed_sequences.append(
                 SeqUtilRecord(sequence=sequence, sequence_id=sequence_id, description=description)
@@ -78,5 +113,8 @@ class SeqUtil:
         with open(file_name, mode='w') as file_handle:
             for record in records:
                 optional_description = f' {record.description}' if record.description else ''
+                if record.properties:
+                    for key, value in record.properties.items():
+                        optional_description += f' [{key}={value}]'
                 sequence = '\n'.join(record.sequence[i:i + 80] for i in range(0, len(record.sequence), 80))
                 file_handle.write(f'>{record.id}{optional_description}\n{sequence}\n')

biolib/utils/zip/remote_zip.py

@@ -9,14 +9,15 @@ https://github.com/uktrade/stream-unzip
 import io
 import zipfile
 
-import requests
-
 from functools import partial
 from struct import Struct
 import zlib
 
 __all__ = ['RemoteIOError', 'RemoteZip']
 
+from biolib._internal.http_client import HttpClient
+
+
 class RemoteZipError(Exception):
     pass
 
@@ -152,8 +153,7 @@ class RemoteIO(io.IOBase):
 
 
 class RemoteZip(zipfile.ZipFile):
-    def __init__(self, url, initial_buffer_size=64*1024, **kwargs):
-        self.kwargs = kwargs
+    def __init__(self, url, initial_buffer_size=64*1024):
         self.url = url
 
         rio = RemoteIO(self.fetch_fun, initial_buffer_size)
@@ -191,22 +191,14 @@ class RemoteZip(zipfile.ZipFile):
             return "bytes=%s%s" % (range_min, '' if range_min < 0 else '-')
         return "bytes=%s-%s" % (range_min, range_max)
 
-    @staticmethod
-    def request(url, range_header, kwargs):
-        kwargs['headers'] = headers = dict(kwargs.get('headers', {}))
-        headers['Range'] = range_header
-        res = requests.get(url, stream=True, **kwargs)
-        res.raise_for_status()
-        if 'Content-Range' not in res.headers:
-            raise RangeNotSupported("The server doesn't support range requests")
-        return res.raw, res.headers
-
     def fetch_fun(self, data_range, stream=False):
         range_header = self.make_header(*data_range)
-        kwargs = dict(self.kwargs)
         try:
-            res, headers = self.request(self.url, range_header, kwargs)
-            return self.make_buffer(res, headers['Content-Range'], stream=stream)
+            response = HttpClient.request(url=self.url, headers={'Range': range_header})
+            if 'Content-Range' not in response.headers:
+                raise RangeNotSupported("The server doesn't support range requests")
+
+            return self.make_buffer(io.BytesIO(response.content), response.headers['Content-Range'], stream=False)
         except IOError as e:
             raise RemoteIOError(str(e))
 

{pybiolib-1.1.1629.dist-info → pybiolib-1.1.1881.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: pybiolib
-Version: 1.1.1629
+Version: 1.1.1881
 Summary: BioLib Python Client
 Home-page: https://github.com/biolib
 License: MIT
@@ -25,7 +25,6 @@ Requires-Dist: flask (>=2.0.1) ; extra == "compute-node"
 Requires-Dist: gunicorn (>=20.1.0) ; extra == "compute-node"
 Requires-Dist: importlib-metadata (>=1.6.1)
 Requires-Dist: pyyaml (>=5.3.1)
-Requires-Dist: requests (>=2.25.1)
 Requires-Dist: rich (>=12.4.4)
 Requires-Dist: typing_extensions (>=3.10.0) ; python_version < "3.8"
 Description-Content-Type: text/markdown

{pybiolib-1.1.1629.dist-info → pybiolib-1.1.1881.dist-info}/RECORD

@@ -1,22 +1,25 @@
 LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
 README.md,sha256=_IH7pxFiqy2bIAmaVeA-iVTyUwWRjMIlfgtUbYTtmls,368
-biolib/__init__.py,sha256=_ydjlp3Kyqr4iWkT63ZdiiwTbqtHjPS2S51EdU0UTk4,3690
+biolib/__init__.py,sha256=nfZvVkrHZLvjvvlAvFzhvem9NMfqgmw8NWaCH9HGzew,4045
 biolib/_internal/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-biolib/_internal/http_client.py,sha256=QlOXLeXIHHmgeIQuNMowD4XFzkTq-Pz_67-HyLmFxHM,3042
-biolib/_internal/push_application.py,sha256=NXQNLPucqkq7eKbNCJQA8OYx4CXYHRJ1CG1ViPAJJH4,10680
+biolib/_internal/data_record/__init__.py,sha256=1Bk303i3rFet9veS56fIsrBYtT5X3n9vcsYMA6T6c5o,36
+biolib/_internal/data_record/data_record.py,sha256=oQ2R7bD1on5aPC3jXP7OOSPeuXkWEqRUR8GV4a6hsJA,6539
+biolib/_internal/data_record/remote_storage_endpoint.py,sha256=LPq8Lr5FhKF9_o5K-bUdT7TeLe5XFUD0AAeTkNEVZug,1133
+biolib/_internal/http_client.py,sha256=cSBIzh00x2HL3BmLxt_GvDI7bWQMNytv_wOy7EXg8kI,4064
+biolib/_internal/push_application.py,sha256=H1PGNtVJ0vRC0li39gFMpPpjm6QeZ8Ob-7cLkLmxS_Y,10009
+biolib/_internal/runtime.py,sha256=un18gmB2wFOXVjKca1Oe6mZI-xGydz8C8seScNvnC2s,2197
+biolib/_internal/utils/__init__.py,sha256=p5vsIFyu-zYqBgdSMfwW9NC_jk7rXvvCbV4Bzd3As7c,630
 biolib/api/__init__.py,sha256=iIO8ZRdn7YDhY5cR47-Wo1YsNOK8H6RN6jn8yor5WJI,137
-biolib/api/client.py,sha256=jts2QbR-pPU0pAuUaYfWsK4q1O4Nu1nQKv6LYu0T0L0,2754
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 biolib/app/__init__.py,sha256=cdPtcfb_U-bxb9iSL4fCEq2rpD9OjkyY4W-Zw60B0LI,37
-biolib/app/app.py,sha256=O8bpuHTWF-sFgQJX9NWoVjwaFpydJqqsFa-p7VPO7fE,10004
-biolib/app/search_apps.py,sha256=CIanvDebNpMtWck0w4IoR_tRZ6LpSWC8DPxXW2e6Ww4,1495
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 biolib/biolib_api_client/__init__.py,sha256=E5EMa19wJoblwSdQPYrxc_BtIeRsAuO0L_jQweWw-Yk,182
-biolib/biolib_api_client/api_client.py,sha256=oaLqTb208TLRVW4-h_va734TrVDRD3kLpFJ93cwQTxk,7130
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-biolib/biolib_api_client/biolib_account_api.py,sha256=2Mc6SbmjBSsz8lF2H3iiaZHEm47LyI0B4rjmvzxKHt4,580
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-biolib/biolib_api_client/biolib_job_api.py,sha256=AvNvflEeCBjG2ZTaFcwvRU-61GdNodFCZQNe50491RM,7823
-biolib/biolib_api_client/biolib_large_file_system_api.py,sha256=5q4UlRw-OB2bRu7CeB14fy-azz2YeSgem5DbvMSaS44,1777
+biolib/biolib_api_client/api_client.py,sha256=J03jRVvod1bgwwAZ3BZVKlUSJi43-ev2DUB0j63GZpc,7189
+biolib/biolib_api_client/app_types.py,sha256=rEw4HICV7ujdmlzM3BjRcMNMbiYItliivpH0rkeJx4s,2465
+biolib/biolib_api_client/auth.py,sha256=kjm0ZHnH3I8so3su2sZbBxNHYp-ZUdrZ5lwQ0K36RSw,949
+biolib/biolib_api_client/biolib_app_api.py,sha256=DndlVxrNTes6DOaWyMINLGZQCRMWVvR7gwt5HVlyf5Y,4240
+biolib/biolib_api_client/biolib_job_api.py,sha256=IpFahcRzm7GNy8DJ-XHYe-x7r4Voba8o22IXw5puHn8,6782
 biolib/biolib_api_client/common_types.py,sha256=RH-1KNHqUF-EkTpfPOSTt5Mq1GPdfju_cqXDesscO1I,123
 biolib/biolib_api_client/job_types.py,sha256=XlDIxijxymLoJcClXhl91h1E4b2fT3pszO9wjlssD4A,1284
 biolib/biolib_api_client/lfs_types.py,sha256=xaGjE-yUyNVM3LyKdslJn5ZXWp6_kVCd4o-ch8Czfm4,227
@@ -32,41 +35,43 @@ 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=0MDEGsyShkiIAHNWXuHfmhrKYVvVhn21Yl9BNWqHIiw,3693
+biolib/biolib_binary_format/utils.py,sha256=1mZFX6KtbhvAXnzxnMJC_rYkiAjh9zhV31l68wVpA4A,4150
 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
 biolib/biolib_logging.py,sha256=J3E5H_LL5k6ZUim2C8gqN7E6lCBZMTpO4tnMpOPwG9U,2854
-biolib/cli/__init__.py,sha256=KChTCmC9swEXHnb3dxoq5lCiospWos_rAMPOOOeRyAw,1022
-biolib/cli/download_container.py,sha256=0X109ZRtThfbEqsXBPU_ocGjxuRVLilNA9pjRMueTqI,466
-biolib/cli/init.py,sha256=Rd6_zpQxQbB0UaSEBFxfsL2j64YuINilNzhDydDDBig,820
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 biolib/cli/runtime.py,sha256=Xv-nrma5xX8NidWcvbUKcUvuN5TCarZa4A8mPVmF-z0,361
-biolib/cli/start.py,sha256=TpZq1VHVkLTW1_PyjIGkJg44E3PzxSaGrN2D_rNJL0c,1736
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 biolib/compute_node/.gitignore,sha256=GZdZ4g7HftqfOfasFpBC5zV1YQAbht1a7EzcXD6f3zg,45
 biolib/compute_node/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 biolib/compute_node/cloud_utils/__init__.py,sha256=VZSScLqaz5tg_gpMvWgwkAu9Qf-vgW_QHRoDOaAmU44,67
-biolib/compute_node/cloud_utils/cloud_utils.py,sha256=ZCNaNwFK8E9s8im8HKTlauIUILXskfMImBEIc4NLtNs,8864
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 biolib/compute_node/job_worker/__init__.py,sha256=ipdPWaABKYrltxny15e2kK8PWdEE7VzXbkKK6wM_zDk,71
-biolib/compute_node/job_worker/cache_state.py,sha256=N2AxvvgfizKx9P_ysM0GDCmueMUlgcveA4xSdz_Z2IQ,4822
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 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
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 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
 biolib/compute_node/job_worker/job_legacy_input_wait_timeout_thread.py,sha256=_cvEiZbOwfkv6fYmfrvdi_FVviIEYr_dSClQcOQaUWM,1198
 biolib/compute_node/job_worker/job_max_runtime_timer_thread.py,sha256=K_xgz7IhiIjpLlXRk8sqaMyLoApcidJkgu29sJX0gb8,1174
-biolib/compute_node/job_worker/job_storage.py,sha256=o4kRBIMyjnbeQyb4CXMDKWVll3aIKkHKSRKBveEii2c,4220
-biolib/compute_node/job_worker/job_worker.py,sha256=nVesFh7Q2VqVywY3MRKlF8PAsqNNOvKIBLac2ih3r5E,27903
+biolib/compute_node/job_worker/job_storage.py,sha256=Ol43f43W6aD2EUkA6G2i9-WxdREr5JPSjo1xFylddOQ,4030
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 biolib/compute_node/job_worker/large_file_system.py,sha256=XXqRlVtYhs-Ji9zQGIk5KQPXFO_Q5jJH0nnlw4GkeMY,10461
 biolib/compute_node/job_worker/mappings.py,sha256=Z48Kg4nbcOvsT2-9o3RRikBkqflgO4XeaWxTGz-CNvI,2499
 biolib/compute_node/job_worker/utilization_reporter_thread.py,sha256=7tm5Yk9coqJ9VbEdnO86tSXI0iM0omwIyKENxdxiVXk,8575
 biolib/compute_node/job_worker/utils.py,sha256=wgxcIA8yAhUPdCwyvuuJ0JmreyWmmUoBO33vWtG60xg,1282
-biolib/compute_node/remote_host_proxy.py,sha256=SabbH0EC946F_aRFB8XhQ5Uabf5hy67RgxBDVj8PzoY,13582
+biolib/compute_node/remote_host_proxy.py,sha256=spjYghbqwX3dFrmedGvXZGXEsnwop1IbbyrXTv1PWz0,15080
 biolib/compute_node/socker_listener_thread.py,sha256=T5_UikA3MB9bD5W_dckYLPTgixh72vKUlgbBvj9dbM0,1601
 biolib/compute_node/socket_sender_thread.py,sha256=YgamPHeUm2GjMFGx8qk-99WlZhEs-kAb3q_2O6qByig,971
 biolib/compute_node/utils.py,sha256=M7i_WTyxbFM3Lri9RWZ_8FeQNYrQIWpKGLfp2I55oeY,4677
@@ -75,34 +80,33 @@ biolib/compute_node/webserver/gunicorn_flask_application.py,sha256=jPfR_YvNBekLU
 biolib/compute_node/webserver/webserver.py,sha256=15PkRyhtdtSgFDxa0z78aPO4ciZURsFqJYi-HtUmZF8,6494
 biolib/compute_node/webserver/webserver_types.py,sha256=Vmt1ZDecYhGBVEYWcW1DVxee1DEPqkqyxQzbsObXWbI,420
 biolib/compute_node/webserver/webserver_utils.py,sha256=XWvwYPbWNR3qS0FYbLLp-MDDfVk0QdaAmg3xPrT0H2s,4234
-biolib/compute_node/webserver/worker_thread.py,sha256=-d0WCrZkf9X0TNO9JBOzwScFUcToKPzW7hOeHXHiE6g,11539
+biolib/compute_node/webserver/worker_thread.py,sha256=26tG73TADnOcXsAr7Iyf6smrLlCqB4x-vvmpUb8WqnA,11569
 biolib/experiments/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 biolib/experiments/experiment.py,sha256=xUd3LkV5ztFIjTx_ehBu8e-flvfuQnYimFtPj1upzb0,5942
 biolib/experiments/types.py,sha256=n9GxdFA7cLMfHvLLqLmZzX31ELeSSkMXFoEEdFsdWGY,171
 biolib/jobs/__init__.py,sha256=aIb2H2DHjQbM2Bs-dysFijhwFcL58Blp0Co0gimED3w,32
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 biolib/jobs/job_result.py,sha256=8GasUmUXD8SjUYrE2N-HrDx7-AI6TEkFONH8H91t01Q,4913
 biolib/jobs/types.py,sha256=4OAvlhOKANzFMrZDd-mhXpEd8RaKcx8sPneZUoWhJ2U,970
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 biolib/lfs/cache.py,sha256=pQS2np21rdJ6I3DpoOutnzPHpLOZgUIS8TMltUJk_k4,2226
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 biolib/tables.py,sha256=acH7VjwAbadLo8P84FSnKEZxCTVsF5rEg9VPuxElNs8,872
 biolib/templates/__init__.py,sha256=Yx62sSyDCDesRQDQgmbDsLpfgEh93fWE8r9u4g2azXk,36
 biolib/templates/example_app.py,sha256=EB3E3RT4SeO_ii5nVQqJpi5KDGNE_huF1ub-e5ZFveE,715
 biolib/typing_utils.py,sha256=krMhxB3SedVQA3HXIrC7DBXWpHKWN5JNmXGcSrrysOc,263
 biolib/user/__init__.py,sha256=Db5wtxLfFz3ID9TULSSTo77csw9tO6RtxMRvV5cqKEE,39
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{pybiolib-1.1.1629.dist-info → pybiolib-1.1.1881.dist-info}/WHEEL

@@ -1,4 +1,4 @@
 Wheel-Version: 1.0
-Generator: poetry-core 1.8.1
+Generator: poetry-core 1.9.0
 Root-Is-Purelib: true
 Tag: py3-none-any

biolib/biolib_api_client/biolib_account_api.py

@@ -1,21 +0,0 @@
-import requests
-
-from biolib.biolib_api_client.auth import BearerAuth
-from biolib.biolib_api_client import BiolibApiClient
-from biolib.biolib_errors import BioLibError
-
-
-class BiolibAccountApi:
-
-    @staticmethod
-    def fetch_by_handle(account_handle):
-        response = requests.get(
-            f'{BiolibApiClient.get().base_url}/api/account/{account_handle}',
-            auth=BearerAuth(BiolibApiClient.get().access_token),
-            timeout=5
-        )
-
-        if not response.ok:
-            raise BioLibError(response.content.decode())
-
-        return response.json()

biolib/biolib_api_client/biolib_large_file_system_api.py

@@ -1,53 +0,0 @@
-import requests
-
-from biolib.biolib_api_client.auth import BearerAuth
-from biolib.biolib_api_client import BiolibApiClient
-from biolib.biolib_api_client.lfs_types import LargeFileSystemVersion, LargeFileSystem
-from biolib.biolib_errors import BioLibError
-
-
-class BiolibLargeFileSystemApi:
-
-    @staticmethod
-    def create(account_uuid: str, name: str) -> LargeFileSystem:
-        response = requests.post(
-            f'{BiolibApiClient.get().base_url}/api/lfs/',
-            auth=BearerAuth(BiolibApiClient.get().access_token),
-            timeout=5,
-            json={'account_uuid': account_uuid, 'name': name}
-        )
-
-        if not response.ok:
-            raise BioLibError(response.content.decode())
-
-        lfs: LargeFileSystem = response.json()
-        return lfs
-
-    @staticmethod
-    def fetch_version(lfs_version_uuid: str) -> LargeFileSystemVersion:
-        response = requests.get(
-            f'{BiolibApiClient.get().base_url}/api/lfs/versions/{lfs_version_uuid}/',
-            auth=BearerAuth(BiolibApiClient.get().access_token),
-            timeout=5,
-        )
-
-        if not response.ok:
-            raise BioLibError(response.content.decode())
-
-        lfs_version: LargeFileSystemVersion = response.json()
-        return lfs_version
-
-    @staticmethod
-    def create_version(resource_uuid: str) -> LargeFileSystemVersion:
-        response = requests.post(
-            f'{BiolibApiClient.get().base_url}/api/lfs/versions/',
-            auth=BearerAuth(BiolibApiClient.get().access_token),
-            json={'resource_uuid': resource_uuid},
-            timeout=5,
-        )
-
-        if not response.ok:
-            raise BioLibError(response.content.decode())
-
-        lfs_version: LargeFileSystemVersion = response.json()
-        return lfs_version

biolib/runtime/results.py

@@ -1,20 +0,0 @@
-import json
-
-from biolib import api
-
-
-def set_main_result_prefix(result_prefix: str) -> None:
-    try:
-        with open('/biolib/secrets/biolib_system_secret', mode='r') as system_secrets_file:
-            system_secrets = json.loads(system_secrets_file.read())
-    except Exception:  # pylint: disable=broad-except
-        raise Exception('Unable to load the BioLib runtime system secret') from None
-
-    if not system_secrets['version'].startswith('1.'):
-        raise Exception(f"Unexpected system secret version {system_secrets['version']} expected 1.x.x")
-
-    api.client.patch(
-        data={'result_name_prefix': result_prefix},
-        headers={'Job-Auth-Token': system_secrets['job_auth_token']},
-        path=f"/jobs/{system_secrets['job_uuid']}/main_result/",
-    )