toil 8.2.0__py3-none-any.whl → 9.0.0__py3-none-any.whl

toil/worker.py

@@ -224,12 +224,17 @@ def unstick_worker(interval: float = 120, timeout: float = 120) -> None:
         # We also want to handle the case where the child process gets so
         # gummed up that it can't exit when killed.
 
-        # Preserve errors form child process but not output
-        child = subprocess.Popen(
-            ["lsof", "-p", str(pid)],
-            stdin=subprocess.DEVNULL,
-            stdout=subprocess.DEVNULL,
-        )
+        try:
+            child = subprocess.Popen(
+                ["lsof", "-p", str(pid)],
+                stdin=subprocess.DEVNULL,
+                stdout=subprocess.DEVNULL,
+                stderr=subprocess.DEVNULL,
+            )
+        except FileNotFoundError:
+            # If there isn't an lsof, don't try and use it.
+            logger.info("lsof is not available. We will not be able to use it to unstick a stuck Toil leader.")
+            return
         try:
             child.wait(timeout=timeout)
         except subprocess.TimeoutExpired:

{toil-8.2.0.dist-info → toil-9.0.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: toil
-Version: 8.2.0
+Version: 9.0.0
 Summary: Pipeline management software for clusters.
 Home-page: https://github.com/DataBiosphere/toil
 Author: Benedict Paten and the Toil community
@@ -53,11 +53,11 @@ Requires-Dist: boto3-stubs[autoscaling,boto3,ec2,iam,s3,sdb,sts]<2,>=1.28.3.post
 Requires-Dist: mypy-boto3-iam<2,>=1.28.3.post2; extra == "aws"
 Requires-Dist: mypy-boto3-s3<2,>=1.28.3.post2; extra == "aws"
 Requires-Dist: moto<6,>=5.0.3; extra == "aws"
-Requires-Dist: ec2_metadata<3; extra == "aws"
+Requires-Dist: ec2_metadata<3,>=2.14.0; extra == "aws"
 Provides-Extra: cwl
 Requires-Dist: cwltool==3.1.20250110105449; extra == "cwl"
 Requires-Dist: schema-salad<9,>=8.4.20230128170514; extra == "cwl"
-Requires-Dist: galaxy-tool-util<25; extra == "cwl"
+Requires-Dist: galaxy-tool-util<26; extra == "cwl"
 Requires-Dist: galaxy-util<25; extra == "cwl"
 Requires-Dist: ruamel.yaml<=0.19,>=0.15; extra == "cwl"
 Requires-Dist: ruamel.yaml.clib>=0.2.6; extra == "cwl"
@@ -77,18 +77,18 @@ Requires-Dist: types-urllib3; extra == "kubernetes"
 Requires-Dist: types-PyYAML; extra == "kubernetes"
 Requires-Dist: idna>=2; extra == "kubernetes"
 Provides-Extra: wdl
-Requires-Dist: miniwdl==1.12.1; extra == "wdl"
+Requires-Dist: miniwdl==1.13.0; extra == "wdl"
 Requires-Dist: wdlparse==0.1.0; extra == "wdl"
 Requires-Dist: graphlib-backport==1.0; python_version < "3.9" and extra == "wdl"
 Provides-Extra: server
-Requires-Dist: connexion[swagger-ui]<4,>=2.10.0; extra == "server"
-Requires-Dist: flask<2.3,>=2.0; extra == "server"
-Requires-Dist: werkzeug<4,>=2.0; extra == "server"
-Requires-Dist: flask-cors==5.0.1; extra == "server"
-Requires-Dist: gunicorn==23.0.0; extra == "server"
-Requires-Dist: celery<6,>=5.1.0; extra == "server"
-Requires-Dist: wes-service<5,>=4.0.0; extra == "server"
-Requires-Dist: ruamel.yaml<0.19,>=0.15; extra == "server"
+Requires-Dist: connexion[swagger-ui]<4,>=3; extra == "server"
+Requires-Dist: flask<4,>=3; extra == "server"
+Requires-Dist: werkzeug<4,>=3; extra == "server"
+Requires-Dist: flask-cors<6,>=5.0.1; extra == "server"
+Requires-Dist: gunicorn<24,>=23.0.0; extra == "server"
+Requires-Dist: celery<6,>=5.4.0; extra == "server"
+Requires-Dist: wes-service<6,>=5.0.0; extra == "server"
+Requires-Dist: ruamel.yaml<1,>=0.18.7; extra == "server"
 Provides-Extra: htcondor
 Requires-Dist: htcondor<25,>=23.6.0; sys_platform != "darwin" and extra == "htcondor"
 Provides-Extra: mesos
@@ -98,10 +98,10 @@ Requires-Dist: boto3-stubs[autoscaling,boto3,ec2,iam,s3,sdb,sts]<2,>=1.28.3.post
 Requires-Dist: mypy-boto3-iam<2,>=1.28.3.post2; extra == "all"
 Requires-Dist: mypy-boto3-s3<2,>=1.28.3.post2; extra == "all"
 Requires-Dist: moto<6,>=5.0.3; extra == "all"
-Requires-Dist: ec2_metadata<3; extra == "all"
+Requires-Dist: ec2_metadata<3,>=2.14.0; extra == "all"
 Requires-Dist: cwltool==3.1.20250110105449; extra == "all"
 Requires-Dist: schema-salad<9,>=8.4.20230128170514; extra == "all"
-Requires-Dist: galaxy-tool-util<25; extra == "all"
+Requires-Dist: galaxy-tool-util<26; extra == "all"
 Requires-Dist: galaxy-util<25; extra == "all"
 Requires-Dist: ruamel.yaml<=0.19,>=0.15; extra == "all"
 Requires-Dist: ruamel.yaml.clib>=0.2.6; extra == "all"
@@ -117,17 +117,17 @@ Requires-Dist: kubernetes-stubs==v22.6.0post1; extra == "all"
 Requires-Dist: types-urllib3; extra == "all"
 Requires-Dist: types-PyYAML; extra == "all"
 Requires-Dist: idna>=2; extra == "all"
-Requires-Dist: miniwdl==1.12.1; extra == "all"
+Requires-Dist: miniwdl==1.13.0; extra == "all"
 Requires-Dist: wdlparse==0.1.0; extra == "all"
 Requires-Dist: graphlib-backport==1.0; python_version < "3.9" and extra == "all"
-Requires-Dist: connexion[swagger-ui]<4,>=2.10.0; extra == "all"
-Requires-Dist: flask<2.3,>=2.0; extra == "all"
-Requires-Dist: werkzeug<4,>=2.0; extra == "all"
-Requires-Dist: flask-cors==5.0.1; extra == "all"
-Requires-Dist: gunicorn==23.0.0; extra == "all"
-Requires-Dist: celery<6,>=5.1.0; extra == "all"
-Requires-Dist: wes-service<5,>=4.0.0; extra == "all"
-Requires-Dist: ruamel.yaml<0.19,>=0.15; extra == "all"
+Requires-Dist: connexion[swagger-ui]<4,>=3; extra == "all"
+Requires-Dist: flask<4,>=3; extra == "all"
+Requires-Dist: werkzeug<4,>=3; extra == "all"
+Requires-Dist: flask-cors<6,>=5.0.1; extra == "all"
+Requires-Dist: gunicorn<24,>=23.0.0; extra == "all"
+Requires-Dist: celery<6,>=5.4.0; extra == "all"
+Requires-Dist: wes-service<6,>=5.0.0; extra == "all"
+Requires-Dist: ruamel.yaml<1,>=0.18.7; extra == "all"
 Requires-Dist: pymesos<0.4,>=0.3.15; python_version < "3.11" and extra == "all"
 Dynamic: author
 Dynamic: author-email

{toil-8.2.0.dist-info → toil-9.0.0.dist-info}/RECORD

@@ -1,6 +1,6 @@
 toil/__init__.py,sha256=mgHlMg77mY5alLQDJJR0sudBWZ_kRajyPWIUOUu9OBc,18223
 toil/bus.py,sha256=Rr6oTGo5jtTJLtxycuPg-5U9fCqiDAvKMdlj7xYka8Q,30035
-toil/common.py,sha256=_ZlwED0nPEEaniPvkUEpcabu4K7TMaK7DphyasYYwe4,82485
+toil/common.py,sha256=SCcqojtspk3oqwStKUx-daP7fMCgWQ8TWBgh7WNcSRY,83253
 toil/deferred.py,sha256=2ShsuPqDwu0jhBQ6ocMwe4lfNegBm2lj7dOG9E7X3Zc,14152
 toil/exceptions.py,sha256=oL2d9uutwtcPkMcEUGrixKUd4y1JLSA0-N7hNJqCLSk,1883
 toil/job.py,sha256=0oFg6QNZCpyEKZu0zuzV5CWJGVTsloC6kdhTctw4PxE,175060
@@ -10,8 +10,8 @@ toil/resource.py,sha256=PlI6R28aYqfYLDsztjlAYpkVGfSr2O0DhrgDXpXJxa0,25650
 toil/serviceManager.py,sha256=GE5IUjQmNrekYv9tclim0RlCFf4ueOQ2H4qHjMBrOcg,19978
 toil/statsAndLogging.py,sha256=JXir7TCV8OdDaAdt3VsDR2rbdNWk4ILyOwlKHVdoXT0,18696
 toil/toilState.py,sha256=DD52XQv8wRCYzF7-F6Olqa_k6u-_py-JWyjqJHRh6Z0,17989
-toil/version.py,sha256=UwayJ-SLBE4wow4L_L1YZD2Y8l7zOWxYb8A6fmt0vR0,491
-toil/worker.py,sha256=ywdN4v8qz5CuNQgMJcOlOsVj7BcdqdWuoTp6mFCnE0Y,38967
+toil/version.py,sha256=lCDjuTyRMxYVorP8HSMfJira24aXGsZI4ZMgqwWK_UI,486
+toil/worker.py,sha256=17TPlqCcUSeqRBnz0ztYHbkAxJs6mOBb8vv4Jf2csUY,39208
 toil/batchSystems/__init__.py,sha256=T8psI5GmvE71_XmajKsfeQ3YUs6XM7rX1Fy9VNUX_-Q,1036
 toil/batchSystems/abstractBatchSystem.py,sha256=ctlpC_Jzy761eXdx5aP2qQvAMdoTu0uk37p9XcMHGSU,33544
 toil/batchSystems/abstractGridEngineBatchSystem.py,sha256=NnVPOdgrASq_3Gwn0fcJUBgg2OrSNcknn1jXoan17xQ,24340
@@ -25,7 +25,7 @@ toil/batchSystems/local_support.py,sha256=lq3VcjSgRvaXqXHWdxhzvUOfCl0i16eJ7YtGx1
 toil/batchSystems/lsf.py,sha256=rQJe6dpnqs-LAZ0qaAo94VtxvhADwv8XzRTrQulp-mQ,18089
 toil/batchSystems/lsfHelper.py,sha256=IE5y-x-Mofau7jksWjBdTLt5dVvyj-w8dd3gqwZ-r8o,7227
 toil/batchSystems/options.py,sha256=HZ4nI2paKxulcWOd81R3p_j7BE4j2U9ZjWehDKaoyaA,8155
-toil/batchSystems/registry.py,sha256=eizqlhn4AdBzykdOFu_S5ZcU4eYpMB_vDTb8ml6W3Kw,6701
+toil/batchSystems/registry.py,sha256=PjWcsJ-ohiZiruqopcKy7581xiZ9JeDF6xz-JE51u7I,3914
 toil/batchSystems/singleMachine.py,sha256=EerJZCoDCPODBqeDRs4SEKC8htLq22QFJnBmkFwYACA,40350
 toil/batchSystems/slurm.py,sha256=GgktcOVWCOQ3zFZNFDwxfoa5dU60TwV8HJwq1-OcJe4,43306
 toil/batchSystems/torque.py,sha256=A3Pe1IvIltpJSoVulfEUrilr-Ok_8E9hf41jbHYYzjQ,11795
@@ -36,23 +36,23 @@ toil/batchSystems/mesos/executor.py,sha256=ETsWkx0JaERw7YS5rzv23_xj492hKSxDOsanV
 toil/batchSystems/mesos/test/__init__.py,sha256=dRAlqdSi5c-uTikMYFV8-_0tenUuWZniy72O5QxVFoQ,4779
 toil/cwl/__init__.py,sha256=lfyX1eoJ1IA26AUzUl6-ODTi0ZqD_0F6-rL5eqfl_9E,2131
 toil/cwl/conftest.py,sha256=R6Jw5-PeTCK0rapfHmV_VJwVcqlVbO5w3cFUbaIWUnk,848
-toil/cwl/cwltoil.py,sha256=k6xJ-EFi_VKOs_sQDsjoCJbDltQf2JzVS5copB7Ty6A,182695
-toil/cwl/utils.py,sha256=CV69GfCEJ1uvAlbDPJKq42Ed19vBE2E5F7v5MZJK7Gw,8023
+toil/cwl/cwltoil.py,sha256=s-1-9zNLIOP9CywWp5vtjj19dTJPRnj_pKsYlANsz-Q,184277
+toil/cwl/utils.py,sha256=6t_R1VzrkybjJpwzNyTm_4MY1A86KZ8grLQAYaSdVMA,12424
 toil/fileStores/__init__.py,sha256=xbcTdb31JXsLPxBbL3P5lm8XZlHNBohHPyawXNnZLOs,2388
 toil/fileStores/abstractFileStore.py,sha256=g_gViwfPqYOjGOTQCXrHOulQanump6P0SPirvX6ZqWQ,30851
 toil/fileStores/cachingFileStore.py,sha256=g5e4sV3XYkvpv6ZjbEuRc9KreX57RJtr4vOvxV_B4rw,101746
 toil/fileStores/nonCachingFileStore.py,sha256=VsPoKz0Ln5HP-trLlAarqhqJIzdwpADfu8E_UJH4X9w,15806
 toil/jobStores/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-toil/jobStores/abstractJobStore.py,sha256=KDXkMEzLNhsV0T2NJmfWLZwaax5lG7w_TOxTzlJsjiI,79283
+toil/jobStores/abstractJobStore.py,sha256=W7Rn2f0vixyNlMVFWA__Mze7iJXEe7huE3M4ADif7Jk,70625
 toil/jobStores/conftest.py,sha256=xNy_u3dGZz0206dnixzYvAvT85a0HfkIJw9XbsiGJnM,837
-toil/jobStores/fileJobStore.py,sha256=nW_u0TePN0i-cPQu-uyTwZcnvyrSU4n4Q4O0LcgvhOc,52657
-toil/jobStores/googleJobStore.py,sha256=Qi3tJh0yFyLd2R6jxM6kvG-3o7Pby8_Q-j0W9ileiaY,27835
+toil/jobStores/fileJobStore.py,sha256=L6feaKFA6wGkO0VJZx6Zhy2yTUW3LbfC54YysRWB6RI,52703
+toil/jobStores/googleJobStore.py,sha256=j9Zz2HBIX5tb20pcatgPr73QOQLXakWEHjwRyr2QGMM,27926
 toil/jobStores/utils.py,sha256=R1NKkyHC9txT7KMXAoa51aNOJJOHx7HloPqI7PD6ipA,15521
 toil/jobStores/aws/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-toil/jobStores/aws/jobStore.py,sha256=bx3HIxUX52ynzFVgr-ytOWjdCKE_LoqCtB6BraN8zRU,89914
+toil/jobStores/aws/jobStore.py,sha256=y6k0AcRm6MpLC2qNSD_S5d6XSgIMbH99_82cCrRAvkU,89960
 toil/jobStores/aws/utils.py,sha256=GDSNhcwgkhyrq1YDdYJscg1gjFyGpGxIARUYH3cMvPw,20584
 toil/lib/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-toil/lib/accelerators.py,sha256=Gmfs9OHt_pV1PIfgOWP9AN8EWcqa281xolcZ_z0lcas,8015
+toil/lib/accelerators.py,sha256=1AGwJUDWB9GUNjJyG9ybDlwHPHzw7a3e8s05_VWyXJU,8069
 toil/lib/bioio.py,sha256=vx29gpAT3HgJkwXrfDnkyqnx68QGy_40ZtB-V2Utl8w,2403
 toil/lib/compatibility.py,sha256=pPPTJyk3GUZ8SdAv14a3v2HLWbNtcnsAFuCEbh36UZ4,1535
 toil/lib/conversions.py,sha256=CuOHhxpS8RFdp9U-oLSWmhSNLMKT7lqG5N5uhvxfCK4,5135
@@ -63,20 +63,22 @@ toil/lib/ec2nodes.py,sha256=UVlJqVvMofRUhoEpND3Tal5p_p-p5_LHOJRA3dH7ziI,14693
 toil/lib/exceptions.py,sha256=IEiFKct1-5y6SPqVH-l4nNjMIcRmHxMErjUrRy8kqQY,3041
 toil/lib/expando.py,sha256=JN8dbYk5K48Dwmvb_3bCkO6NYbb89iL0CRchg3_FyFA,2924
 toil/lib/ftp_utils.py,sha256=VqrstWP6dKJnTHtrxGPp7dzeDpyaD4IR4I5NKrPR3g0,7598
-toil/lib/generatedEC2Lists.py,sha256=pcdygnoZLokhhihbzm3YMNtXsNZSsvrhjYFA784qeag,274723
+toil/lib/generatedEC2Lists.py,sha256=aDBxTWjyomO9pXqaXCcHODKOrHxUvAsHoxagI6YMNrs,295062
 toil/lib/history.py,sha256=5WKztlZFxxS_gNfg3hNCXSnI1h0Ea24qzuEg1v4cBgU,45203
 toil/lib/history_submission.py,sha256=1Pwh0BfF-DmoBvgNMDEVIwpWy9VmDaS9A6TnaF9BHUk,28734
 toil/lib/humanize.py,sha256=6uXOB07rvAxO8jpIh2kPwy9bfoDu0eEUmBGz9m1chS8,1267
 toil/lib/io.py,sha256=2Qdi7K3f0jZIjgyK5AgRJWXt-E1t1ItwHnEkQ9vv5xA,13399
 toil/lib/iterables.py,sha256=gLbbxBzB0f-hhMRcCN9P-TDqNYK0myUKVCYBa9eJo-c,3459
 toil/lib/memoize.py,sha256=2ikkIOXfZv7LGsoEn8i2ojYTqqNmIIBhSCfBQxySIKg,3225
-toil/lib/misc.py,sha256=LQVJU-Z0w8HxPSzrWgTJ3uX4d1fsURBQBSpCank2hck,7607
+toil/lib/misc.py,sha256=59JamwB-aJ6uVPhTkMwu1BxTreW1WDJrqtayMbJbUJw,7612
 toil/lib/objects.py,sha256=3XNMtBkNcIB2EMl5cteVDkuSRKAOpnd_GhxgTGVh43M,5381
+toil/lib/plugins.py,sha256=n-leeVkpE0Po9CG18Szd3NQftsTfHlUf_rqyxjX4M_U,3754
 toil/lib/resources.py,sha256=jBJbheSUvC-klR65-WX87viZx2yvBIgqn4dI2gVP1GQ,4043
 toil/lib/retry.py,sha256=h95XV6zyOsaoTbfNZyPiSjzKL-Cw7HCKaDx37ikO08s,23020
 toil/lib/threading.py,sha256=8dQ1ACWMCGbKmQ2Ya9SL-2bKdp-dpJEHyWBdN4tKS1c,30975
 toil/lib/throttle.py,sha256=ua21juOmGI7JZP4pXdR8-s2TpF6PpwW3sg11a2gcrbI,4955
 toil/lib/trs.py,sha256=IK-I-wniAp8oUenit_BlVlGENEq4EukJ18Rr1-edTlI,18882
+toil/lib/url.py,sha256=RMXQOwxK-FRELLFj0cfX57vjhlBUhIMtbl7Ve5ZA7rc,11193
 toil/lib/web.py,sha256=9eJQteiGfh721crY9CSH4zNpPeH4dylPJ7IarAlSAMo,1432
 toil/lib/aws/__init__.py,sha256=VI77J2o4IehFBpEUjS4eHmXlxEplFnKYHq6w8ZyotEk,7905
 toil/lib/aws/ami.py,sha256=SD728qocULXqWZmxPslcymukG-MxfNniMsBE9d1VVcM,9341
@@ -91,18 +93,18 @@ toil/lib/encryption/_nacl.py,sha256=_EL8LrF5T5DT0dhNIlyIxDB8c8irGe9nJVh1Sn7mFkA,
 toil/lib/encryption/conftest.py,sha256=jCrRo2AtsGaO6hitm-wkNOTAU78JWSVA52E0hZdMpq8,227
 toil/options/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 toil/options/common.py,sha256=vUMadLlEze1Wks7F1ZcVk9tsAIQMbxVQePJx-KxCNVk,46257
-toil/options/cwl.py,sha256=-KdV5S345Ry-DzmngP_8nHTByeC5UKzEa48Fz-a_1vg,14002
-toil/options/runner.py,sha256=7DxJLvcMm6CLwTZnPW1f9UmQKx1vw5Sq8VaqJDLzC7g,2388
-toil/options/wdl.py,sha256=pxXhh35dWT2AnnM8Dek3oJoVvbAE6Sc38cDsB_9H7qw,3467
+toil/options/cwl.py,sha256=aPcbaCA8h739e1GW2oUbymYBpPaDEnCDrPZowI6zMII,14578
+toil/options/runner.py,sha256=gr5D8PJ_eNu-VGhAYdhDlhDCkfd_id5_FrTQyZoiD5c,2614
+toil/options/wdl.py,sha256=kqM3AElkX00-34DSDnHRViahL6C0vsE9-wyosKvU2Fk,3790
 toil/provisioners/__init__.py,sha256=Z3OV95yx77LBVRUtjX_J8r_0OSC2glAIo5y7irbB-S0,9794
 toil/provisioners/abstractProvisioner.py,sha256=R3OuUV2p8GWWuRs2PbaHkjHufOLyoknUaHq4vKPVGMc,58000
 toil/provisioners/clusterScaler.py,sha256=9FgnSPbn2U_FYUSJUeN67A0kdh-Yl0roi5nZLeJVr_I,64980
 toil/provisioners/gceProvisioner.py,sha256=8OsbSZeMgAB9l03zQ9WdKZ2-zFrHyzgXoLNdGKjdYcU,24212
 toil/provisioners/node.py,sha256=RFLXufNQhjiHUO5fBfbEBd4cbtSUWsNmiGcDDodioMI,15198
 toil/provisioners/aws/__init__.py,sha256=XmVkSuHGMvaMbDJ36yZHGkH5fsUJYJyi3V4R9MYw0Gs,8621
-toil/provisioners/aws/awsProvisioner.py,sha256=Fd2twLvxKeDKfPw-HoxOdgtJqLajwVVJ1VqhDqt-D0I,89097
+toil/provisioners/aws/awsProvisioner.py,sha256=UOw4wmRy_7biTIsc0i5fhW7rvyXv0Mv-tTGIRlM2Fo0,90358
 toil/server/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-toil/server/app.py,sha256=Xi8ZYs0qKsg1ISNETiYjMtt_qxrou3NuHZcx9bu3MNU,7048
+toil/server/app.py,sha256=Rldi7Wwft7Zxl3jrqh6HVHc4gMNiMjZ3CJhc7nVLW-w,7431
 toil/server/celery_app.py,sha256=PbdwRb7tY5MU4PkPgFZkq7CMiCe6LHBxw5YgcbdsKIE,663
 toil/server/utils.py,sha256=HLZb3-HtHqf5QYP3rlSK6C-Av_YxexYrYCcwrcmDP_0,21942
 toil/server/wsgi_app.py,sha256=3V3xr80F4uJUzeBbTbPI1uKJ3FUcI-H_8T1eiiEM5iw,1959
@@ -111,17 +113,17 @@ toil/server/api_spec/README.rst,sha256=NMhLwWqNgKd6r3CWeMVIv6jr4w7bxgGNxSescauUQ
 toil/server/api_spec/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 toil/server/api_spec/workflow_execution_service.swagger.yaml,sha256=zZ2QepvbpvLROIcVIHWrcQLUwXEqGfm68fmkdrx8rw8,25377
 toil/server/cli/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-toil/server/cli/wes_cwl_runner.py,sha256=geQq9c7s_kgG03aoYnsjOFwIKwGztq-cp39_QjaLI0g,18577
+toil/server/cli/wes_cwl_runner.py,sha256=Bf5SYRRFrWS2ELyM3CN2lsfuWjEsKQQ9TQ7qsGgIrmw,18578
 toil/server/wes/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-toil/server/wes/abstract_backend.py,sha256=d8IA2Fepwr9g6BU-CO3VBvODiPswsps9rPcOKUUvD8k,10202
+toil/server/wes/abstract_backend.py,sha256=BXmM_jrescRYuN4phgEjag6Xl-tXRPYz_PtwVkd3suc,9212
 toil/server/wes/amazon_wes_utils.py,sha256=xRrV7hiWoWVwxJykgL2HQdMf1FZg73eqEBltKXya1Fc,10287
 toil/server/wes/tasks.py,sha256=DBjUUbxY6mq0H4aB8qiGhatmz6qWJWHkHPgfAqSr37w,24746
-toil/server/wes/toil_backend.py,sha256=GaBhjr2evNwV07QiAiQf6GgDRGxiX1SblkLTEa7-WFo,27499
-toil/test/__init__.py,sha256=xIdXggxpZw1yQwr5rm75RHdQoJtsN5dvMVP1YB0A-os,49260
+toil/server/wes/toil_backend.py,sha256=u7aA-Tb3QRH5mX5hJW1DWWjBNaSjgoo-C2jvvNic7v4,27518
+toil/test/__init__.py,sha256=ZuMmiG2Il-MiziEEiGetNyY8gJQOyH_ftxCkwIe-2Ig,49238
 toil/test/conftest.py,sha256=JADYg_YbV_b28B970KcOqh4UYAhjpqwHxdQj4vt0xeE,237
 toil/test/batchSystems/__init__.py,sha256=9h1rcqYjjnn97DpDEJf8tlNOIDx0XiXyQwh0F_81y0k,612
-toil/test/batchSystems/batchSystemTest.py,sha256=M0ouVip6SNuxOfSIJ22VltkCD4QFRnO5ob6kgObrHeY,56670
-toil/test/batchSystems/batch_system_plugin_test.py,sha256=KUVDjbXgxopEqTC4pAAwUePc-QrThxhChyaernYVpVM,2802
+toil/test/batchSystems/batchSystemTest.py,sha256=5NkxMJ-mHOgN9oZoSK9zjPGZJf5CR2cQOuQ3V1P3g4I,56410
+toil/test/batchSystems/batch_system_plugin_test.py,sha256=eZlOOzdL7ja_EymnD_veY3fnAhz_6hE4CJwDKVyss-w,2991
 toil/test/batchSystems/test_gridengine.py,sha256=kZCF7WIAmCF1LTPPWd4zC6piQr0UaKJ3kYKz5tsBal0,6353
 toil/test/batchSystems/test_lsf_helper.py,sha256=JICnAPvU7HfqJ0RhIpC-IFfHLKftOAAQF2Iqc7nFs30,4697
 toil/test/batchSystems/test_slurm.py,sha256=998C-m8sKBlYGSIz8XJ5Br_TnuCZT2JOaHtUUz4WHkQ,28565
@@ -137,7 +139,7 @@ toil/test/cwl/colon_test_output_job.yaml,sha256=BbXFRuWsRJV6JpJAutnHywJl_AbwEcwN
 toil/test/cwl/conditional_wf.cwl,sha256=SAtUSmD5ta-DVG0SRHpT8EtOp8ztm-6v9Vskcl09c3s,357
 toil/test/cwl/conditional_wf.yaml,sha256=WsS9dlpbRUll9M56KspQdOJ8h6SASTW7eRELefa274E,24
 toil/test/cwl/conftest.py,sha256=0RaeuccXuYPc3t-8_NR82uSA-jbuScfg1pgTnljpx9Q,2013
-toil/test/cwl/cwlTest.py,sha256=qtzNd44vIOCby2R2uzg0r8_DMR3YHCT0waRyyVf6Mcg,72589
+toil/test/cwl/cwlTest.py,sha256=q7FcgPptzlWeD82JMxqtMMMODdLzxulhVFr4djvJvrU,79156
 toil/test/cwl/directory_from_directory.cwl,sha256=-hjZuUs5fMpKMnbj-FZAgcns4iWsCFJV6Qh7-fsRn1I,556
 toil/test/cwl/download.cwl,sha256=XQvz8or_-k6pwyhgeUeJOew0_b3BeHcF08EaalbySz4,296
 toil/test/cwl/download_directory.cwl,sha256=RdPmElFeHJqXGWVqEqR5VFMmXDiJubhTcM9hIrAhKY4,535
@@ -204,7 +206,7 @@ toil/test/cwl/test_filename_conflict_resolution.ms/table.f5,sha256=47DEQpj8HBSa-
 toil/test/cwl/test_filename_conflict_resolution.ms/table.info,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 toil/test/cwl/test_filename_conflict_resolution.ms/table.lock,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 toil/test/docs/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-toil/test/docs/scriptsTest.py,sha256=UKtoAhBejHE7ID0LxibGSoDaHaZXCBHJlMwXqv7KD6s,5806
+toil/test/docs/scriptsTest.py,sha256=AEeKeWg-gKdywibzeqOCTUFbHRZ3BjBfPJmmxruFvCQ,5855
 toil/test/docs/scripts/example_alwaysfail.py,sha256=G5XKlky7OOh7R6Y9wlHFQp_PcFV3D6aewexInAuQF2k,761
 toil/test/docs/scripts/example_alwaysfail_with_files.wdl,sha256=XIStTSp03DK1Gd9OsDXOQTxATaeF_J212hK6nVjNlBs,549
 toil/test/docs/scripts/example_cachingbenchmark.py,sha256=WisGS4jWk2Raj9E53iiFdb2l8BXbUvDekPLu7kFNNtY,3335
@@ -243,6 +245,8 @@ toil/test/lib/test_ec2.py,sha256=p3GfCgSSLqZQ-oanHk1sdIuP1wVUwQvXKsXzWl5ow0I,418
 toil/test/lib/test_history.py,sha256=CKiWlTNbhhVEy3EpSohVGl4pg79p1iLhHQ340RzfKa8,8417
 toil/test/lib/test_misc.py,sha256=X1o4Dw1PcbnS1Y_gTR2q4STwqRjXYjSEUy2Q1BxeijM,2766
 toil/test/lib/test_trs.py,sha256=mcGn3boLFkjS_aPMOS-gwlFd7QcMVM-vpLadBnZb8SE,6918
+toil/test/lib/test_url.py,sha256=fWsi6yJEBahwfwWBKqcpalF2cUDfYG4aCk6BicJg-p0,2388
+toil/test/lib/url_plugin_test.py,sha256=7aXCIEIZ4cThcSqWwsfu5U_3QwhNxaI8WN-DTnB7CrA,3636
 toil/test/lib/aws/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 toil/test/lib/aws/test_iam.py,sha256=uSZZdGwwjJvxRDYfGoKGbWPx1kx6A61gVmb73LepLMU,7076
 toil/test/lib/aws/test_s3.py,sha256=NpYO0GnACbGpaKPwM0yeObxqBoFYJv92RUP7VdtompE,3061
@@ -255,14 +259,14 @@ toil/test/options/__init__.py,sha256=9h1rcqYjjnn97DpDEJf8tlNOIDx0XiXyQwh0F_81y0k
 toil/test/options/options.py,sha256=xpp0PZKilYeXwkXUBszRZSC_LziX_rPi9shsQlemuuo,1474
 toil/test/provisioners/__init__.py,sha256=9h1rcqYjjnn97DpDEJf8tlNOIDx0XiXyQwh0F_81y0k,612
 toil/test/provisioners/clusterScalerTest.py,sha256=-Q5epOMHynfnlNZfpVXMU48puw_G9fyLiW8Gl8Qrk5o,44463
-toil/test/provisioners/clusterTest.py,sha256=KICXMM11ISAZ3fWjWddqDp4EDTQPsfpXAntYa_21c30,9639
-toil/test/provisioners/gceProvisionerTest.py,sha256=fkNBPPGqlA713Mp8kygvXZTd9dOKvbmDkvB9HIMMxuo,13630
+toil/test/provisioners/clusterTest.py,sha256=CpTEXear3WnsjszU__pvkOm19o5X27BzKyFA2TaVycc,10180
+toil/test/provisioners/gceProvisionerTest.py,sha256=eL3G66PzMqjB2ahXMTUd6rBGByJgtblp5_uItSyRHv4,13619
 toil/test/provisioners/provisionerTest.py,sha256=_JAvTs9bjynVpRkJI0VLPHZw-Y7kHI9B1vaWR4RomKA,2179
 toil/test/provisioners/restartScript.py,sha256=GodLqsIiYNxXFWQtyYHrxACI1fSUeGzcltO6qOdznj4,416
 toil/test/provisioners/aws/__init__.py,sha256=9h1rcqYjjnn97DpDEJf8tlNOIDx0XiXyQwh0F_81y0k,612
-toil/test/provisioners/aws/awsProvisionerTest.py,sha256=OVk0RvotdfRQt6Xu38M7nDK0BgXER9AnBk4y3pFaUi0,23764
+toil/test/provisioners/aws/awsProvisionerTest.py,sha256=M1XN80n_NSO31b8zhqEvxDMfoyJIwKoNUaQ9f7ypegY,23753
 toil/test/server/__init__.py,sha256=9h1rcqYjjnn97DpDEJf8tlNOIDx0XiXyQwh0F_81y0k,612
-toil/test/server/serverTest.py,sha256=4daj22UNwzWXqTTTmgjDyIFeG8Js4iv-ZmBxeyHcjhs,27553
+toil/test/server/serverTest.py,sha256=2T9FD32-9uoGjtRC2mtJh67j9_3OWZgFONQmkA4f2tU,29399
 toil/test/sort/__init__.py,sha256=9h1rcqYjjnn97DpDEJf8tlNOIDx0XiXyQwh0F_81y0k,612
 toil/test/sort/restart_sort.py,sha256=A-1pWMhSIHSbtib-u1rvOFbhRqW_mQlf6dEbelFs7Q0,11358
 toil/test/sort/sort.py,sha256=H_f4DzLGSnkHpFRayYtJKkxlCAVcikuVR48MnuybrDI,11258
@@ -309,10 +313,10 @@ toil/test/wdl/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 toil/test/wdl/lint_error.wdl,sha256=vLwgk8CrPzLNRJnMLuQV22m1E1cwG-m76ZM0XgSKfLY,86
 toil/test/wdl/test.csv,sha256=1hPDzKegqv1H582Bx-4CaFBLE-jCSyZo3N6KhjhsXO8,18
 toil/test/wdl/test.tsv,sha256=O4F7lQouDB33aMklmbL2KOoLNNEDx_EUiHmANZ4pKeg,18
-toil/test/wdl/wdltoil_test.py,sha256=9xcJEWMWSJDU3hJBfWfbavt8CuesvP0Ot2Z8utWAQsI,50532
+toil/test/wdl/wdltoil_test.py,sha256=vGaoxuY_H_s_wHzPHXrPSVMLz0Wx1KVsx1rJGwKmo8M,47907
 toil/test/wdl/wdltoil_test_kubernetes.py,sha256=MJs8w6LXISSCM3fXfBw6kCUtvNb_jM0yTsbenSWXf0s,2839
 toil/test/wdl/md5sum/empty_file.json,sha256=Y4Yb2dygeV8J7wowyUuTi8qOwmRR-znb70r3jsPw688,27
-toil/test/wdl/md5sum/md5sum-gs.json,sha256=0Y6b0YN-v4Kt8nTGkNIiKfB2C53Rsio5Hij1Oy6wogE,79
+toil/test/wdl/md5sum/md5sum-gs.json,sha256=PppK5H77nRcpo_n2ttZzEPkoxrLVypGlFD6Wrwe-hfk,123
 toil/test/wdl/md5sum/md5sum.1.0.wdl,sha256=BJMdlruHIRcuBLQY738T_eyHZms-8obz4-P6VxrwW30,445
 toil/test/wdl/md5sum/md5sum.input,sha256=Dku-ociuYkwF79yyEiesBDbi97E3AVJwfLhogDnlE-E,67
 toil/test/wdl/md5sum/md5sum.json,sha256=s1uy1XWxlVmPs6twrFiNGCWUEk_ZcohNLkyAfyNOklE,64
@@ -394,6 +398,7 @@ toil/test/wdl/testfiles/drop_files_subworkflow.wdl,sha256=Qrq7LPfQGmD8ALWUVyp3Al
 toil/test/wdl/testfiles/empty.txt,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 toil/test/wdl/testfiles/not_enough_outputs.wdl,sha256=AO3v20B5nR28MZmmKYCTiqh3hRJgg6LCENAZ2nC4IYg,438
 toil/test/wdl/testfiles/random.wdl,sha256=74vORE5a-fcQs_z73uyjUzkRqpGLv22bWmlNuvE83nw,1017
+toil/test/wdl/testfiles/read_file.wdl,sha256=9UkeiNK7QQJfzARfWfApL_zQ_7O3cTAF3_IyJfBhQJs,296
 toil/test/wdl/testfiles/string_file_coercion.json,sha256=nu3kh6p0_jgKz2Mcw7NjvM10sBfF9BE627SLvThvff0,45
 toil/test/wdl/testfiles/string_file_coercion.wdl,sha256=jAtxOuPkoZLvVDIJhrOqKFuX-0_79Fwz2W9UlF9voLs,687
 toil/test/wdl/testfiles/test.json,sha256=XdtB9ajGigQBbXEPHSGcB6PVpWiN2rnr0gH9uc6mpXU,43
@@ -404,7 +409,7 @@ toil/test/wdl/testfiles/test_lines.txt,sha256=T8YhSilj6qZUlOMAiJP12Cg3khvJjtheRu
 toil/test/wdl/testfiles/test_map.txt,sha256=QyN7s49sriiQAf9yiaOAaL6bX8RD33-cAt6Kb204lZU,24
 toil/test/wdl/testfiles/test_string.txt,sha256=RJIcNvAtpktKTMLRM0lPdz9HOrjMpcS911oJGLeciQI,19
 toil/test/wdl/testfiles/url_to_file.wdl,sha256=Qn3FsMMkdz3ZOY41J2x2okkyHap0WC7G1Aw4TEx7o4U,255
-toil/test/wdl/testfiles/url_to_optional_file.wdl,sha256=ycNVeUX6A3_bxID7pEdF4irBCgSix2KogDmvJ9dQMZY,208
+toil/test/wdl/testfiles/url_to_optional_file.wdl,sha256=70lDMV3_DdqkULMsglviII4vS627je7nvCS6R5d0iTw,243
 toil/test/wdl/testfiles/vocab.json,sha256=yj0WO6sFU4GCciYUBWjzvvfqrBh869doeOC2Pp5EI1Y,3
 toil/test/wdl/testfiles/vocab.wdl,sha256=CHKWCFX9ZxuYRnR9SLS5_T9pqei3LSo5bChSxLg9xNI,1995
 toil/test/wdl/testfiles/wait.wdl,sha256=Nua3sRf-ciA6eVUzZG2nopYNgrrA3-4MNyKV395MvxQ,402
@@ -424,16 +429,16 @@ toil/utils/toilLaunchCluster.py,sha256=nKoqmbAnadoZNKx7plzyZzAgMj6yn38tu2LOQqjLN
 toil/utils/toilMain.py,sha256=Lz7dtkpE8urTRgimRjewKvbh4Xgh6l0OJRtxX203LyI,2790
 toil/utils/toilRsyncCluster.py,sha256=cR-4o9KpoyBdObCwQgpAqpO30VK3gGzwHKOGyQHGQeQ,2150
 toil/utils/toilServer.py,sha256=4XbyOHQHgMWWrCWj9Uz1M-jLQheV2Ju-DQ_fNdnBg1o,1178
-toil/utils/toilSshCluster.py,sha256=QSz2w1vJfiBVicz3ooLqNJM_BRKrF3N6mxWdbmF9Pbo,2840
+toil/utils/toilSshCluster.py,sha256=yjNOjbtC1CdvTRK1vOygamXvlUYHnbmWtsOyH5lBNkg,3580
 toil/utils/toilStats.py,sha256=I8ERYFA0NxYDC8meBoMkxABmVfTlvYWnOBRP8BfVGEc,25615
 toil/utils/toilStatus.py,sha256=qacxW5lcguvmhUi1b4cjm1acJik0zpsP7CsUuZyX-fo,20424
-toil/utils/toilUpdateEC2Instances.py,sha256=dreH9Vc2qUoc0he5AwqiFmqdOQp3tMmIfkjWm7GS5qE,1295
+toil/utils/toilUpdateEC2Instances.py,sha256=47972f1_oRvKOZv77EcBr3QjP2YNl8SZWhTsw6mWG-4,1318
 toil/wdl/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 toil/wdl/utils.py,sha256=U0TqbVTsap0VdeZjrUf4l71A7Zns-Hkso1B1Zdp2LRk,1316
-toil/wdl/wdltoil.py,sha256=wrkG23RYgDMi2LzoQwkGlUw5N22MiF1_uI8tAc92f20,248545
-toil-8.2.0.dist-info/licenses/LICENSE,sha256=YVxVi652J1ZDmtC3EMP5r0EbK85-hm_pzogiULmlqUA,12862
-toil-8.2.0.dist-info/METADATA,sha256=f6l9WgLeKx7-60wH5yHBgVo6ATCio82BrdXvwTZYoww,8687
-toil-8.2.0.dist-info/WHEEL,sha256=wXxTzcEDnjrTwFYjLPcsW_7_XihufBwmpiBeiXNBGEA,91
-toil-8.2.0.dist-info/entry_points.txt,sha256=EF2yFhV2UYuJGr-OjMkUOd3RyOCgRWQbS6XJtBJ25eM,436
-toil-8.2.0.dist-info/top_level.txt,sha256=1ydj7IXvHS9tMT5OVTSSpub6ZOaQeIn3KGCgJqaikF0,5
-toil-8.2.0.dist-info/RECORD,,
+toil/wdl/wdltoil.py,sha256=Jo9b-QH9bdBAERQteLv4cwh4gE-6BXVZakNHBuwH6rg,243539
+toil-9.0.0.dist-info/licenses/LICENSE,sha256=YVxVi652J1ZDmtC3EMP5r0EbK85-hm_pzogiULmlqUA,12862
+toil-9.0.0.dist-info/METADATA,sha256=HCWcmygjuGJXxNgNKCjsY9e8FACTRcWzhEEcJNG5kfM,8695
+toil-9.0.0.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
+toil-9.0.0.dist-info/entry_points.txt,sha256=EF2yFhV2UYuJGr-OjMkUOd3RyOCgRWQbS6XJtBJ25eM,436
+toil-9.0.0.dist-info/top_level.txt,sha256=1ydj7IXvHS9tMT5OVTSSpub6ZOaQeIn3KGCgJqaikF0,5
+toil-9.0.0.dist-info/RECORD,,

{toil-8.2.0.dist-info → toil-9.0.0.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (80.1.0)
+Generator: setuptools (80.9.0)
 Root-Is-Purelib: true
 Tag: py3-none-any