toil 6.1.0a1__py3-none-any.whl → 8.0.0__py3-none-any.whl

{toil-6.1.0a1.dist-info → toil-8.0.0.dist-info}/LICENSE

@@ -202,3 +202,28 @@
    WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
    See the License for the specific language governing permissions and
    limitations under the License.
+
+All code in this repository excluding src/toil/statsAndLogging.py::install_log_color is under the Apache License as outlined directly above.
+Some code in src/toil/statsAndLogging.py::install_log_color is under the MiniWDL MIT License as outlined directly below.
+
+MIT License
+
+Copyright (c) 2018 Chan Zuckerberg Initiative
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

toil-8.0.0.dist-info/METADATA

@@ -0,0 +1,173 @@
+Metadata-Version: 2.2
+Name: toil
+Version: 8.0.0
+Summary: Pipeline management software for clusters.
+Home-page: https://github.com/DataBiosphere/toil
+Author: Benedict Paten and the Toil community
+Author-email: toil-community@googlegroups.com
+License: Apache License v2.0
+Classifier: Development Status :: 5 - Production/Stable
+Classifier: Environment :: Console
+Classifier: Intended Audience :: Developers
+Classifier: Intended Audience :: Science/Research
+Classifier: Intended Audience :: Healthcare Industry
+Classifier: License :: OSI Approved :: Apache Software License
+Classifier: Natural Language :: English
+Classifier: Operating System :: MacOS :: MacOS X
+Classifier: Operating System :: POSIX
+Classifier: Operating System :: POSIX :: Linux
+Classifier: Programming Language :: Python :: 3.9
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
+Classifier: Topic :: Scientific/Engineering
+Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
+Classifier: Topic :: Scientific/Engineering :: Astronomy
+Classifier: Topic :: Scientific/Engineering :: Atmospheric Science
+Classifier: Topic :: Scientific/Engineering :: Information Analysis
+Classifier: Topic :: Scientific/Engineering :: Medical Science Apps.
+Classifier: Topic :: System :: Distributed Computing
+Classifier: Topic :: Utilities
+Requires-Python: >=3.9
+Description-Content-Type: text/x-rst
+License-File: LICENSE
+Requires-Dist: dill<0.4,>=0.3.2
+Requires-Dist: requests<=2.31.0
+Requires-Dist: docker<8,>=6.1.0
+Requires-Dist: urllib3<3,>=1.26.0
+Requires-Dist: python-dateutil
+Requires-Dist: psutil<7,>=6.1.0
+Requires-Dist: PyPubSub<5,>=4.0.3
+Requires-Dist: addict<2.5,>=2.2.1
+Requires-Dist: backports.zoneinfo[tzdata]; python_version < "3.9"
+Requires-Dist: enlighten<2,>=1.5.2
+Requires-Dist: configargparse<2,>=1.7
+Requires-Dist: ruamel.yaml>=0.15
+Requires-Dist: pyyaml<7,>=6
+Requires-Dist: typing-extensions<5,>=4.6.2
+Requires-Dist: coloredlogs<16,>=15
+Provides-Extra: aws
+Requires-Dist: boto3-stubs[autoscaling,boto3,ec2,iam,s3,sdb,sts]<2,>=1.28.3.post2; extra == "aws"
+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"
+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-util<25; extra == "cwl"
+Requires-Dist: ruamel.yaml<=0.19,>=0.15; extra == "cwl"
+Requires-Dist: ruamel.yaml.clib>=0.2.6; extra == "cwl"
+Requires-Dist: networkx!=2.8.1,<4; extra == "cwl"
+Requires-Dist: CacheControl[filecache]; extra == "cwl"
+Requires-Dist: cwl-utils>=0.36; extra == "cwl"
+Provides-Extra: encryption
+Requires-Dist: pynacl<2,>=1.4.0; extra == "encryption"
+Provides-Extra: google
+Requires-Dist: apache-libcloud<3,>=2.2.1; extra == "google"
+Requires-Dist: google-cloud-storage<=2.8.0,>=2; extra == "google"
+Requires-Dist: google-auth<3,>=2.18.1; extra == "google"
+Provides-Extra: kubernetes
+Requires-Dist: kubernetes<33,>=12.0.1; extra == "kubernetes"
+Requires-Dist: kubernetes-stubs==v22.6.0post1; extra == "kubernetes"
+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: 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<4,>=2.0; extra == "server"
+Requires-Dist: werkzeug<4,>=2.0; extra == "server"
+Requires-Dist: flask-cors==5.0.0; 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"
+Provides-Extra: htcondor
+Requires-Dist: htcondor<25,>=23.6.0; sys_platform != "darwin" and extra == "htcondor"
+Provides-Extra: mesos
+Requires-Dist: pymesos<0.4,>=0.3.15; python_version < "3.11" and extra == "mesos"
+Provides-Extra: all
+Requires-Dist: boto3-stubs[autoscaling,boto3,ec2,iam,s3,sdb,sts]<2,>=1.28.3.post2; extra == "all"
+Requires-Dist: mypy-boto3-iam<2,>=1.28.3.post2; extra == "all"
+Requires-Dist: mypy-boto3-s3<2,>=1.28.3.post2; extra == "all"
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+Requires-Dist: ec2_metadata<3; extra == "all"
+Requires-Dist: cwltool==3.1.20250110105449; extra == "all"
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+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"
+Requires-Dist: networkx!=2.8.1,<4; extra == "all"
+Requires-Dist: CacheControl[filecache]; extra == "all"
+Requires-Dist: cwl-utils>=0.36; extra == "all"
+Requires-Dist: pynacl<2,>=1.4.0; extra == "all"
+Requires-Dist: apache-libcloud<3,>=2.2.1; extra == "all"
+Requires-Dist: google-cloud-storage<=2.8.0,>=2; extra == "all"
+Requires-Dist: google-auth<3,>=2.18.1; extra == "all"
+Requires-Dist: kubernetes<33,>=12.0.1; extra == "all"
+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: 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<4,>=2.0; extra == "all"
+Requires-Dist: werkzeug<4,>=2.0; extra == "all"
+Requires-Dist: flask-cors==5.0.0; 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: pymesos<0.4,>=0.3.15; python_version < "3.11" and extra == "all"
+Dynamic: author
+Dynamic: author-email
+Dynamic: classifier
+Dynamic: description
+Dynamic: description-content-type
+Dynamic: home-page
+Dynamic: license
+Dynamic: provides-extra
+Dynamic: requires-dist
+Dynamic: requires-python
+Dynamic: summary
+
+.. image:: https://badges.gitter.im/bd2k-genomics-toil/Lobby.svg
+   :alt: Join the chat at https://gitter.im/bd2k-genomics-toil/Lobby
+   :target: https://gitter.im/bd2k-genomics-toil/Lobby?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge
+
+Toil is a scalable, efficient, cross-platform (Linux & macOS) pipeline management system,
+written entirely in Python, and designed around the principles of functional
+programming. It supports running workflows written in either Common Workflow Language (`CWL`_) 1.0-1.2 or 
+Workflow Description Language (`WDL`_) 1.0-1.1, as well as having its own rich Python API for writing workflows against. 
+It supports running workflows locally on your system (e.g. a laptop), on an HPC cluster, or in the cloud. 
+
+* Check the `website`_ for a description of Toil and its features.
+* Full documentation for the latest stable release can be found at
+  `Read the Docs`_.
+* Please subscribe to low-volume `announce`_ mailing list so we keep you informed
+* Google Groups discussion `forum`_
+* See our occasional `blog`_ for tutorials. 
+* Use `biostars`_ channel for discussion.
+
+.. _website: http://toil.ucsc-cgl.org/
+.. _Read the Docs: https://toil.readthedocs.io/en/latest
+.. _announce: https://groups.google.com/forum/#!forum/toil-announce
+.. _forum: https://groups.google.com/forum/#!forum/toil-community
+.. _blog: https://toilpipelines.wordpress.com/
+.. _biostars: https://www.biostars.org/t/toil/
+.. _CWL: https://www.commonwl.org/
+.. _WDL: https://openwdl.org/
+
+Notes:
+
+* Toil moved from https://github.com/BD2KGenomics/toil to https://github.com/DataBiosphere/toil on July 5th, 2018.
+* Toil dropped Python 2.7 support on February 13, 2020 (the last working py2.7 version is 3.24.0).

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{toil-6.1.0a1.dist-info → toil-8.0.0.dist-info}/WHEEL

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 Wheel-Version: 1.0
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+Generator: setuptools (75.8.0)
 Root-Is-Purelib: true
 Tag: py3-none-any
 

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-Summary: Pipeline management software for clusters.
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-Author: Benedict Paten and the Toil community
-Author-email: toil-community@googlegroups.com
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-Classifier: Topic :: Scientific/Engineering :: Medical Science Apps.
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