pybiolib 1.2.174__py3-none-any.whl → 1.2.180.dev1__py3-none-any.whl

biolib/cli/run.py

@@ -4,18 +4,28 @@ import click
 
 from biolib import biolib_errors, utils
 from biolib.app import BioLibApp
-from biolib.typing_utils import Tuple
+from biolib.experiments.experiment import Experiment
+from biolib.typing_utils import Optional, Tuple
 
 
 @click.command(
     context_settings=dict(ignore_unknown_options=True, allow_interspersed_args=False),
-    help='Run an application on BioLib',
+    help='Run an application on BioLib.',
 )
-@click.option('--local', is_flag=True, required=False, help='Run the application locally')
-@click.option('--non-blocking', is_flag=True, required=False, help='Run the application non blocking')
+@click.option('--experiment', type=str, required=False, help='Experiment name or URI to add the run to.')
+@click.option('--local', is_flag=True, required=False, help='Run the application locally.')
+@click.option('--non-blocking', is_flag=True, required=False, help='Run the application non blocking.')
 @click.argument('uri', required=True)
 @click.argument('args', nargs=-1, type=click.UNPROCESSED)
-def run(local: bool, non_blocking: bool, uri: str, args: Tuple[str]) -> None:
+def run(experiment: Optional[str], local: bool, non_blocking: bool, uri: str, args: Tuple[str]) -> None:
+    if experiment:
+        with Experiment(uri=experiment):
+            _run(local=local, non_blocking=non_blocking, uri=uri, args=args)
+    else:
+        _run(local=local, non_blocking=non_blocking, uri=uri, args=args)
+
+
+def _run(local: bool, non_blocking: bool, uri: str, args: Tuple[str]) -> None:
     try:
         app = BioLibApp(uri=uri)
     except biolib_errors.BioLibError as error:

biolib/experiments/experiment.py

@@ -134,7 +134,7 @@ class Experiment:
     def show(self) -> None:
         BioLibTable(
             columns_to_row_map=Experiment._table_columns_to_row_map,
-            rows=[self._experiment_dict],
+            rows=[dict(**self._experiment_dict, name=self.name, created_at=self._resource_dict['created_at'])],
             title=f'Experiment: {self.name}',
         ).print_table()
 

biolib/tables.py

@@ -1,9 +1,9 @@
 from collections import OrderedDict
 
 from rich.console import Console
-from rich.table import Table, Column
+from rich.table import Column, Table
 
-from biolib.typing_utils import List, Any
+from biolib.typing_utils import Any, List
 
 
 class BioLibTable:
@@ -17,9 +17,7 @@ class BioLibTable:
         columns = [Column(header=header, **meta['params']) for header, meta in self.columns_to_row_map.items()]
         table = Table(*columns, title=self.title)
         for row in self.rows:
-            table.add_row(
-                *[str(row[column['key']]) for column in self.columns_to_row_map.values()]
-            )
+            table.add_row(*[str(row[column['key']]) for column in self.columns_to_row_map.values()])
         return table
 
     def print_table(self):

{pybiolib-1.2.174.dist-info → pybiolib-1.2.180.dev1.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: pybiolib
-Version: 1.2.174
+Version: 1.2.180.dev1
 Summary: BioLib Python Client
 Home-page: https://github.com/biolib
 License: MIT

{pybiolib-1.2.174.dist-info → pybiolib-1.2.180.dev1.dist-info}/RECORD

@@ -66,7 +66,7 @@ biolib/cli/download_container.py,sha256=HIZVHOPmslGE5M2Dsp9r2cCkAEJx__vcsDz5Wt5L
 biolib/cli/init.py,sha256=wQOfii_au-d30Hp7DdH-WVw-WVraKvA_zY4za1w7DE8,821
 biolib/cli/lfs.py,sha256=z2qHUwink85mv9yDgifbVKkVwuyknGhMDTfly_gLKJM,4151
 biolib/cli/push.py,sha256=RxB4RHpjtL27Fpq7WRGojJ53R9jUuE1Cq9_NmHFzNsM,1306
-biolib/cli/run.py,sha256=BbvXLQ-XibjQ71Y2d4URMH_8dflNVwM0i3TIWhw_u_c,1634
+biolib/cli/run.py,sha256=MCo0ZqW2pHBxOoCI3i5gAx5D0auW9fmxHqkAF4TRhms,2134
 biolib/cli/runtime.py,sha256=Xv-nrma5xX8NidWcvbUKcUvuN5TCarZa4A8mPVmF-z0,361
 biolib/cli/start.py,sha256=rg8VVY8rboFhf1iQo3zE3WA5oh_R1VWWfYJEO1gMReY,1737
 biolib/compute_node/.gitignore,sha256=GZdZ4g7HftqfOfasFpBC5zV1YQAbht1a7EzcXD6f3zg,45
@@ -101,14 +101,14 @@ biolib/compute_node/webserver/webserver_types.py,sha256=2t8EaFKESnves3BA_NBdnS2y
 biolib/compute_node/webserver/webserver_utils.py,sha256=XWvwYPbWNR3qS0FYbLLp-MDDfVk0QdaAmg3xPrT0H2s,4234
 biolib/compute_node/webserver/worker_thread.py,sha256=GRRBUqXdMKvbjyLQhYlqGIbFKeU2iiEXIe5IXi9wgdg,11806
 biolib/experiments/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-biolib/experiments/experiment.py,sha256=jIRixmQm3Gq9YdJ3I0-rE1vFukXqq6U4zXehFOJ1yZk,7614
+biolib/experiments/experiment.py,sha256=m7FB7hot8CMOVrNyWGPB6FTkWQJwI0ytpIvtPxfoPME,7684
 biolib/jobs/__init__.py,sha256=aIb2H2DHjQbM2Bs-dysFijhwFcL58Blp0Co0gimED3w,32
 biolib/jobs/job.py,sha256=k9uksoA7BgSU-Mw5jHtuLHdTlg-G_d_89nVoPYcUnbg,20092
 biolib/jobs/job_result.py,sha256=rALHiKYNaC9lHi_JJqBob1RubzNLwG9Z386kwRJjd2M,5885
 biolib/jobs/types.py,sha256=ezvaoTANsWazK6PmfpYcqezdfjP7MNBEBfqIZGoZhz8,997
 biolib/runtime/__init__.py,sha256=MlRepA11n2H-3plB5rzWyyHK2JmP6PiaP3i6x3vt0mg,506
 biolib/sdk/__init__.py,sha256=8uyOAKt8-Xo11jAWXCg14NkE1u0FkOBC07L3V7wGsCg,1960
-biolib/tables.py,sha256=acH7VjwAbadLo8P84FSnKEZxCTVsF5rEg9VPuxElNs8,872
+biolib/tables.py,sha256=uxkbnXVZduZbz_1BRkpXgw_P71Puvsr8lW2ogt2VpPc,842
 biolib/templates/__init__.py,sha256=Yx62sSyDCDesRQDQgmbDsLpfgEh93fWE8r9u4g2azXk,36
 biolib/templates/example_app.py,sha256=EB3E3RT4SeO_ii5nVQqJpi5KDGNE_huF1ub-e5ZFveE,715
 biolib/typing_utils.py,sha256=ntzrlyTkUaO2OtccLYzCAGztGdca0WT5fikJUmSkT-Y,148
@@ -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-1.2.174.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
-pybiolib-1.2.174.dist-info/METADATA,sha256=whtDRAsVaAK8ZdCekzmffyOrdtKgkagocbSclm4sjrc,1507
-pybiolib-1.2.174.dist-info/WHEEL,sha256=sP946D7jFCHeNz5Iq4fL4Lu-PrWrFsgfLXbbkciIZwg,88
-pybiolib-1.2.174.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
-pybiolib-1.2.174.dist-info/RECORD,,
+pybiolib-1.2.180.dev1.dist-info/LICENSE,sha256=F2h7gf8i0agDIeWoBPXDMYScvQOz02pAWkKhTGOHaaw,1067
+pybiolib-1.2.180.dev1.dist-info/METADATA,sha256=Gr8SFOQ8qFOhYR-kKm5v8MPmJbJl_6sL50eA9Uhg--4,1512
+pybiolib-1.2.180.dev1.dist-info/WHEEL,sha256=sP946D7jFCHeNz5Iq4fL4Lu-PrWrFsgfLXbbkciIZwg,88
+pybiolib-1.2.180.dev1.dist-info/entry_points.txt,sha256=p6DyaP_2kctxegTX23WBznnrDi4mz6gx04O5uKtRDXg,42
+pybiolib-1.2.180.dev1.dist-info/RECORD,,