Cloudsmith - Repositories - Ultimaker (ultimaker) - debian-backup (debian-backup) - seqprep-data

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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).

seqprep-data 1.3.2-3

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One-liner (summary)

example data set for seqprep - only used for testing

Description

SeqPrep is a program to merge paired end Illumina reads that are overlapping into a single longer read. It may also just be used for its adapter trimming feature without doing any paired end overlap. When an adapter sequence is present, that means that the two reads must overlap (in most cases) so they are forcefully merged. When reads do not have adapter sequence they must be treated with care when doing the merging, so a much more specific approach is taken. The default parameters were chosen with specificity in mind, so that they could be ran on libraries where very few reads are expected to overlap. It is always safest though to save the overlapping procedure for libraries where you have some prior knowledge that a significant portion of the reads will have some overlap.

This package is not needed for normal operation of seqprep. It simply serves some test data as well as a test script.

License

Unknown

Size

34.2 MB

Downloads

Status	Completed
Checksum (MD5)	c427e178b5140ad50eaeefb73f19ce81
Checksum (SHA-1)	d1a95a5da82c541d985cafefd4fa8fb99433816d
Checksum (SHA-256)	de58e7daacafc4a75b2811eec50ef202921f48ae5612643ef8de08fa6f9a86b5
Checksum (SHA-512)	1751c1392a6df1a36b9e519fa1c3abb364f5d9d27f73478b3b234b8690049fe2bd…
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	6 months, 3 weeks ago
Uploaded By
Slug Id	seqprep-data_132-3_alldeb-iwq0
Unique Id	PATyGS8gGrL9
Version (Raw)	1.3.2-3
Version (Parsed)	Major: 1 Minor: 3 Patch: 2 Pre (Str): (empty) Pre (Num Array): 3 Type: SemVer (Strict)
	extended metadata
Homepage	http://seqanswers.com/wiki/SeqPrep
Installed Size	35.1 MB
Maintainer	Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Priority	optional
Section	science
Source	seqprep

Dependencies

Checksum (md5)

1a4a44b034675fdbfff8d346f7471216

Depends

seqprep

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|Latest version of 'seqprep-data' @ Cloudsmith|
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rendered as:

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

To install/use seqprep-data @ version 1.3.2-3 ...

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 seqprep-data=1.3.2-3

Warning: Note that this package is for Debian 10 (Buster) / all 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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