python-pbcommand_0.5.3-1_all.deb


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Description

python-pbcommand - common command-line interface for Pacific Biosciences analysis modules

Property Value
Distribution Ubuntu 17.10 (Artful Aardvark)
Repository Ubuntu Universe i386
Package name python-pbcommand
Package version 0.5.3
Package release 1
Package architecture all
Package type deb
Installed size 407 B
Download size 77.78 KB
Official Mirror archive.ubuntu.com
To integrate with the pbsmrtpipe workflow engine, one must to be able to
generate a Tool Contract and to be able to run from a Resolved Tool Contract.
A Tool Contract contains the metadata of the exe, such as the file types of
inputs, outputs and options.
There are two principal use cases, first wrapping/calling Python functions that
have been defined in external Python packages, or scripts. Second, creating a
CLI tool that supports emitting tool contracts, running resolved tool contracts
and complete argparse-style CLI.

Alternatives

Package Version Architecture Repository
python-pbcommand_0.5.3-1_all.deb 0.5.3 all Ubuntu Universe
python-pbcommand - - -

Requires

Name Value
python-avro -
python-iso8601 -
python-numpy -
python-requests -
python:any << 2.8
python:any >= 2.7.5-5~

Download

Type URL
Binary Package python-pbcommand_0.5.3-1_all.deb
Source Package python-pbcommand

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install python-pbcommand deb package:
    # sudo apt-get install python-pbcommand

Files

Path
/usr/lib/python2.7/dist-packages/pbcommand/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/common_options.py
/usr/lib/python2.7/dist-packages/pbcommand/interactive_resolver.py
/usr/lib/python2.7/dist-packages/pbcommand/resolver.py
/usr/lib/python2.7/dist-packages/pbcommand/utils.py
/usr/lib/python2.7/dist-packages/pbcommand/validators.py
/usr/lib/python2.7/dist-packages/pbcommand-0.5.3.egg-info/PKG-INFO
/usr/lib/python2.7/dist-packages/pbcommand-0.5.3.egg-info/dependency_links.txt
/usr/lib/python2.7/dist-packages/pbcommand-0.5.3.egg-info/not-zip-safe
/usr/lib/python2.7/dist-packages/pbcommand-0.5.3.egg-info/requires.txt
/usr/lib/python2.7/dist-packages/pbcommand-0.5.3.egg-info/top_level.txt
/usr/lib/python2.7/dist-packages/pbcommand/cli/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/core.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/quick.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/utils.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/dev_app.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/dev_gather_fasta_app.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/dev_mixed_app.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/dev_quick_hello_world.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/dev_scatter_fasta_app.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/dev_simple_app.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/dev_txt_app.py
/usr/lib/python2.7/dist-packages/pbcommand/cli/examples/template_simple.py
/usr/lib/python2.7/dist-packages/pbcommand/engine/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/engine/runner.py
/usr/lib/python2.7/dist-packages/pbcommand/models/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/models/common.py
/usr/lib/python2.7/dist-packages/pbcommand/models/conditions.py
/usr/lib/python2.7/dist-packages/pbcommand/models/parser.py
/usr/lib/python2.7/dist-packages/pbcommand/models/report.py
/usr/lib/python2.7/dist-packages/pbcommand/models/tool_contract.py
/usr/lib/python2.7/dist-packages/pbcommand/pb_io/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/pb_io/common.py
/usr/lib/python2.7/dist-packages/pbcommand/pb_io/conditions.py
/usr/lib/python2.7/dist-packages/pbcommand/pb_io/report.py
/usr/lib/python2.7/dist-packages/pbcommand/pb_io/tool_contract_io.py
/usr/lib/python2.7/dist-packages/pbcommand/schemas/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/schemas/datastore.avsc
/usr/lib/python2.7/dist-packages/pbcommand/schemas/datastore_view_rules.avsc
/usr/lib/python2.7/dist-packages/pbcommand/schemas/pbreport.avsc
/usr/lib/python2.7/dist-packages/pbcommand/schemas/pipeline_presets.avsc
/usr/lib/python2.7/dist-packages/pbcommand/schemas/pipeline_template_view_rules.avsc
/usr/lib/python2.7/dist-packages/pbcommand/schemas/report_spec.avsc
/usr/lib/python2.7/dist-packages/pbcommand/schemas/resolved_tool_contract.avsc
/usr/lib/python2.7/dist-packages/pbcommand/schemas/tool_contract.avsc
/usr/lib/python2.7/dist-packages/pbcommand/services/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/services/cli.py
/usr/lib/python2.7/dist-packages/pbcommand/services/models.py
/usr/lib/python2.7/dist-packages/pbcommand/services/service_access_layer.py
/usr/lib/python2.7/dist-packages/pbcommand/services/utils.py
/usr/lib/python2.7/dist-packages/pbcommand/testkit/__init__.py
/usr/lib/python2.7/dist-packages/pbcommand/testkit/base_utils.py
/usr/lib/python2.7/dist-packages/pbcommand/testkit/core.py
/usr/share/doc/python-pbcommand/README.md.gz
/usr/share/doc/python-pbcommand/changelog.Debian.gz
/usr/share/doc/python-pbcommand/commandline_interface.rst.gz
/usr/share/doc/python-pbcommand/copyright
/usr/share/doc/python-pbcommand/examples/example_01.py
/usr/share/man/man1/pbservice.1.gz

Changelog

2017-01-15 - Sascha Steinbiss <satta@debian.org>
python-pbcommand (0.5.3-1) unstable; urgency=medium
* Team upload.
* New upstream release.
2016-04-24 - Afif Elghraoui <afif@debian.org>
python-pbcommand (0.3.22-2) unstable; urgency=medium
* Fix installation of manpage.
2016-04-23 - Afif Elghraoui <afif@debian.org>
python-pbcommand (0.3.22-1) unstable; urgency=medium
* Imported Upstream version 0.3.22
* Bump copyright years
* Bump standards version to 3.9.8
* Use encrypted protocols for VCS
2015-11-27 - Afif Elghraoui <afif@ghraoui.name>
python-pbcommand (0.2.17-1) unstable; urgency=low
* Imported Upstream version 0.2.17
2015-10-26 - Afif Elghraoui <afif@ghraoui.name>
python-pbcommand (0.2.16-1) unstable; urgency=low
* Initial release (Closes: #798872)

See Also

Package Description
python-pbconsensuscore_1.0.2-2build2_i386.deb algorithms for PacBio multiple sequence consensus -- Python 2
python-pbcore-doc_1.2.11+dfsg-1ubuntu1_all.deb Python library for processing PacBio data files (documentation)
python-pbcore_1.2.11+dfsg-1ubuntu1_all.deb Python library for processing PacBio data files
python-pbgenomicconsensus_2.1.0-1_all.deb Pacific Biosciences variant and consensus caller (Python 2)
python-pbh5tools-doc_0.8.0+dfsg-5build1_all.deb tools for manipulating HDF5 files produced by Pacific Biosciences (doc)
python-pbkdf2_1.3+20110613.git2a0fb15~ds0-3_all.deb Python RSA PKCS#5 v2.0 module (Python 2)
python-pbsuite-utils_15.8.24+dfsg-2_all.deb software for Pacific Biosciences sequencing data -- Python utilities
python-pcapy_0.10.8-1build1_i386.deb Python interface to the libpcap packet capture library
python-pcl-msgs_0.2.0-6_all.deb Python code for PCL-related Robot OS Messages
python-pcp_3.12.1_i386.deb Performance Co-Pilot Python PMAPI module
python-pcs_0.6+debian-0ubuntu3_i386.deb Packet Construction Set for Python
python-pdal_1.5.0+ds-2_i386.deb Point Data Abstraction Library - Python 2 extension
python-pdfkit_0.5.0-1_all.deb Python wrapper for wkhtmltopdf to convert HTML to PDF (Python 2)
python-pdfminer_20140328+dfsg-1_all.deb PDF parser and analyser
python-pdfrw-doc_0.2-3_all.deb PDF file manipulation library (documentation)
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