recipe entrez-direct

Entrez Direct (EDirect) is an advanced method for accessing the NCBI’s set of interconnected databases (publication, sequence, structure, gene, variation, expression, etc.) from a UNIX terminal window. Functions take search terms from command-line arguments. Individual operations are combined to build multi-step queries. Record retrieval and formatting normally complete the process.

Homepage

ftp://ftp.ncbi.nlm.nih.gov/entrez/entrezdirect/versions/11.0.20190322/README

License

PUBLIC DOMAIN

Recipe

/entrez-direct/meta.yaml

package entrez-direct

(downloads) docker_entrez-direct

Versions

11.0-0, 10.2-0, 10.0-0, 7.70-2, 7.70-1, 7.70-0, 7.00-1, 7.00-0, 5.80-0, 4.00-1, 4.00-0

Depends perl

>=5.26.2,<5.26.3.0a0

Depends perl-html-parser

Depends perl-html-tagset

Depends perl-html-tree

Depends perl-http-cookies

Depends perl-http-date

Depends perl-http-message

Depends perl-http-negotiate

Depends perl-io-socket-ssl

Depends perl-lwp-mediatypes

Depends perl-lwp-protocol-https

Depends perl-mozilla-ca

Depends perl-net-http

Depends perl-uri

Depends perl-www-robotrules

Depends perl-xml-simple

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install entrez-direct

and update with:

conda update entrez-direct

or use the docker container:

docker pull quay.io/biocontainers/entrez-direct:<tag>

(see entrez-direct/tags for valid values for <tag>)