Cloudsmith - Repositories - Ultimaker (ultimaker) - debian-backup (debian-backup) - python-pyvcf

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Open-Source — ultimaker (Ultimaker) / debian-backup — Project

A certifiably-awesome open-source package repository curated by Ultimaker, hosted by Cloudsmith.

Note: Packages in this repository are licensed as GNU General Public License v3.0 or later (dependencies may be licensed differently).

python-pyvcf 0.6.8+git20170215.476169c-1

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One-liner (summary)

Variant Call Format (VCF) parser for Python

Description

The Variant Call Format (VCF) specifies the format of a text file used in bioinformatics for storing gene sequence variations. The format has been developed with the advent of large-scale genotyping and DNA sequencing projects, such as the 1000 Genomes Project.

The intent of this module is to mimic the ``csv`` module in the Python stdlib, as opposed to more flexible serialization formats like JSON or YAML. ``vcf`` will attempt to parse the content of each record based on the data types specified in the meta-information lines -- specifically the ##INFO and ##FORMAT lines. If these lines are missing or incomplete, it will check against the reserved types mentioned in the spec. Failing that, it will just return strings.

This package provides the Python 2 modules.

License

Unknown

Size

39.2 KB

Downloads

Status	Completed
Checksum (MD5)	8c5d3ac559b3705ad0a425d571911cf7
Checksum (SHA-1)	58d7d9cb1b2e66e2fb3c8d34a7a2e9f4897b697b
Checksum (SHA-256)	64a297734cb47c7bd2103f310ce3508d8dc765968087e05363744501235f4b57
Checksum (SHA-512)	b8b1a3ae6dbe7512cb4b026072aff35e88aacd0cdbced7ed8ec102d4f2e1fd8737…
GPG Signature	Download
GPG Fingerprint	c0a114330029b468b1146f70c334efcb2c4f9be3
Distribution	debian/buster - Debian - 10 (Buster)
Storage Region	Dublin, Ireland
Type	Binary (contains binaries and binary artifacts)
Uploaded At	1 year ago
Uploaded By
Slug Id	python-pyvcf_068git20170215476169c-1_arm64deb-wz5j
Unique Id	WNDD9IsbmdZo
Version (Raw)	0.6.8+git20170215.476169c-1
Version (Parsed)	Major: 0 Minor: 6 Patch: 8 Type: SemVer (Strict) Metadata: git20170215.476169c-1
	extended metadata
Homepage	https://pypi.python.org/pypi/PyVCF
Installed Size	152.0 KB
Maintainer	Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Priority	optional
Section	python

Dependencies

Checksum (md5)

10287b786997e159b83136eb9cde483f

Depends	libc6	>=2.17
Depends	python	>=2.7~
Depends	python	<<2.8
Depends	python-pkg-resources
Depends	python:any	>=2.7~
Depends	python:any	<<2.8

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These instructions assume you have setup the repository first (or read it).

To install/use python-pyvcf @ version 0.6.8+git20170215.476169c-1 ...

To install packages, you can quickly setup the repository automatically (recommended):

curl -1sLf \
  'https://dl.cloudsmith.io/public/ultimaker/debian-backup/setup.deb.sh' \
  | sudo -E bash

If you need to force a specific distribution, release/version, architecture, or component (if supported), you can also do that (e.g. if your system is compatible but not identical):

curl -1sLf \
  'https://dl.cloudsmith.io/public/ultimaker/debian-backup/setup.deb.sh' \
  | sudo -E distro=debian codename=buster arch=ARCH component=COMPONENT bash

or ... you can manually configure it yourself before installing packages:

apt-get install -y debian-keyring  # debian only
apt-get install -y debian-archive-keyring  # debian only
apt-get install -y apt-transport-https
# For Debian Stretch, Ubuntu 16.04 and later
keyring_location=/usr/share/keyrings/ultimaker-debian-backup-archive-keyring.gpg
# For Debian Jessie, Ubuntu 15.10 and earlier
keyring_location=/etc/apt/trusted.gpg.d/ultimaker-debian-backup.gpg
curl -1sLf 'https://dl.cloudsmith.io/public/ultimaker/debian-backup/gpg.C334EFCB2C4F9BE3.key' |  gpg --dearmor >> ${keyring_location}
curl -1sLf 'https://dl.cloudsmith.io/public/ultimaker/debian-backup/config.deb.txt?distro=debian&codename=buster&component=main' > /etc/apt/sources.list.d/ultimaker-debian-backup.list
sudo chmod 644 ${keyring_location}
sudo chmod 644 /etc/apt/sources.list.d/ultimaker-debian-backup.list
apt-get update

sudo apt-get install python-pyvcf=0.6.8+git20170215.476169c-1

Warning: Note that this package is for Debian 10 (Buster) / arm64 and may only work for that configuration.

Still stuck? Need help? Don't panic. Just contact us for help (even if you're not a customer).

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