pybiolib 1.2.582__py3-none-any.whl → 1.2.600__py3-none-any.whl

biolib/_internal/push_application.py

@@ -17,6 +17,7 @@ from biolib.biolib_docker_client import BiolibDockerClient
 from biolib.biolib_errors import BioLibError
 from biolib.biolib_logging import logger
 from biolib.typing_utils import Iterable, Optional, Set, TypedDict
+from biolib.utils.app_uri import parse_app_uri
 
 REGEX_MARKDOWN_INLINE_IMAGE = re.compile(r'!\[(?P<alt>.*)\]\((?P<src>.*)\)')
 
@@ -79,22 +80,24 @@ def push_application(
     set_as_active: bool,
     set_as_published: bool,
 ):
-    app_uri_parts = app_uri.split(':')
-    if len(app_uri_parts) > 2:
-        raise BioLibError('Invalid URI only a single colon allowed')
+    parsed_uri = parse_app_uri(app_uri)
+    app_name = parsed_uri['app_name']
 
-    app_uri_to_fetch = app_uri_parts[0]
-    semantic_version = app_uri_parts[1] if len(app_uri_parts) == 2 else None
+    app_uri_to_fetch = f"@{parsed_uri['resource_name_prefix']}/{parsed_uri['account_handle_normalized']}/{app_name}"
+
+    version = parsed_uri['version']
+    semantic_version = f"{version['major']}.{version['minor']}.{version['patch']}" if version else None
 
     app_path_absolute = Path(app_path).resolve()
 
     api_client = BiolibApiClient.get()
     if not api_client.is_signed_in:
         # TODO: Create an exception class for expected errors like this that does not print stacktrace
+
         raise Exception(
             'You must be authenticated to push an application.\n'
-            'Please set the environment variable "BIOLIB_TOKEN=[your_api_token]"\n'
-            f'You can get an API token at: {api_client.base_url}/settings/api-tokens/'
+            'Please set the environment variable "BIOLIB_TOKEN=[your_deploy_token]"\n'
+            f'You can get a deploy key at: {api_client.base_url}/{app_uri_to_fetch}/settings/keys'
         ) from None
 
     # prepare zip file

biolib/jobs/job.py

@@ -91,6 +91,24 @@ class Job:
         self._refetch_job_dict()
         return bool(self._job_dict['ended_at'])
 
+    def is_pending(self) -> bool:
+        """Returns whether the job is in a pending state.
+
+        A job is considered pending if it's not finished yet.
+        The job state is re-fetched when this method is called.
+
+        Returns:
+            bool: True if the job is in a pending state, False otherwise.
+
+        Example::
+            >>> job = biolib.get_job("job_id")
+            >>> if job.is_pending():
+            >>>     print("Job is still running")
+            >>> else:
+            >>>     print("Job has finished")
+        """
+        return not self.is_finished()
+
     def get_name(self) -> str:
         self._refetch_job_dict()
         return self._job_dict['main_result']['name']

{pybiolib-1.2.582.dist-info → pybiolib-1.2.600.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: pybiolib
-Version: 1.2.582
+Version: 1.2.600
 Summary: BioLib Python Client
 License: MIT
 Keywords: biolib

{pybiolib-1.2.582.dist-info → pybiolib-1.2.600.dist-info}/RECORD

@@ -13,7 +13,7 @@ biolib/_internal/lfs/__init__.py,sha256=gSWo_xg61UniYgD7yNYxeT4I9uaXBCBSi3_nmZjn
 biolib/_internal/lfs/cache.py,sha256=pQS2np21rdJ6I3DpoOutnzPHpLOZgUIS8TMltUJk_k4,2226
 biolib/_internal/libs/__init__.py,sha256=Jdf4tNPqe_oIIf6zYml6TiqhL_02Vyqwge6IELrAFhw,98
 biolib/_internal/libs/fusepy/__init__.py,sha256=AWDzNFS-XV_5yKb0Qx7kggIhPzq1nj_BZS5y2Nso08k,41944
-biolib/_internal/push_application.py,sha256=C5YXh-TZzVnz5eBPOWWOU6n750JyKVdHvIQQc-wddG4,12152
+biolib/_internal/push_application.py,sha256=RkS3lFx_T4zhIuLq3yoe_oolSNvDUPC-Xx1Rz7GJkaE,12295
 biolib/_internal/runtime.py,sha256=BiHl4klUHr36MCpqKaUso4idHeBZfPAahLYRQrabFqA,486
 biolib/_internal/types/__init__.py,sha256=xLgOQJFh3GRtiqIJq7MaqHReZx4pp34_zcaFQ_JjuJ4,198
 biolib/_internal/types/app.py,sha256=Mz2QGD_jESX-K9JYnLWPo4YA__Q_1FQQTk9pvidCohU,118
@@ -102,7 +102,7 @@ biolib/compute_node/webserver/worker_thread.py,sha256=7uD9yQPhePYvP2HCJ27EeZ_h6p
 biolib/experiments/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 biolib/experiments/experiment.py,sha256=pBtnOHz0kKoFxlIGf08o8ZCEOze-CljwfOsTdhvCTCk,8646
 biolib/jobs/__init__.py,sha256=aIb2H2DHjQbM2Bs-dysFijhwFcL58Blp0Co0gimED3w,32
-biolib/jobs/job.py,sha256=v6q7QbQWKeNCl5Sog912aduboq7PU1l4vhOVhlZewEI,23591
+biolib/jobs/job.py,sha256=rcQPLrUsVHdzZ0g_T9f3m_mmVF0m-aYi_fKYTbQATaA,24174
 biolib/jobs/job_result.py,sha256=rALHiKYNaC9lHi_JJqBob1RubzNLwG9Z386kwRJjd2M,5885
 biolib/jobs/types.py,sha256=ezvaoTANsWazK6PmfpYcqezdfjP7MNBEBfqIZGoZhz8,997
 biolib/py.typed,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
@@ -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-1.2.582.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
-pybiolib-1.2.582.dist-info/METADATA,sha256=EXVefv4YrS8ZoOBerWf0yDWbEHE_LIGzj5QLbzeZ2SY,1570
-pybiolib-1.2.582.dist-info/WHEEL,sha256=XbeZDeTWKc1w7CSIyre5aMDU_-PohRwTQceYnisIYYY,88
-pybiolib-1.2.582.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
-pybiolib-1.2.582.dist-info/RECORD,,
+pybiolib-1.2.600.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
+pybiolib-1.2.600.dist-info/METADATA,sha256=26dUH21EFM2Qk4OkexGvTh8LHhOTnJ442I4RcgS_sIE,1570
+pybiolib-1.2.600.dist-info/WHEEL,sha256=XbeZDeTWKc1w7CSIyre5aMDU_-PohRwTQceYnisIYYY,88
+pybiolib-1.2.600.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
+pybiolib-1.2.600.dist-info/RECORD,,