mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-13 05:13:09 +00:00
f420d97ca2
* renamed output: xml * removed tail -n+3 from output * removed comment * removed blank space * removed blank space * updated test
57 lines
1.8 KiB
YAML
57 lines
1.8 KiB
YAML
name: "entrezdirect_esummary"
|
|
description: Queries an NCBI database using Unique Identifier(s)
|
|
keywords:
|
|
- public datasets
|
|
- ncbi
|
|
- entrez
|
|
- metadata
|
|
- query
|
|
- database
|
|
tools:
|
|
- entrezdirect:
|
|
description: |
|
|
Entrez Direct (EDirect) is a 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: https://www.ncbi.nlm.nih.gov/books/NBK179288/
|
|
documentation: https://www.ncbi.nlm.nih.gov/books/NBK25501/
|
|
tool_dev_url: https://www.ncbi.nlm.nih.gov/books/NBK25498/
|
|
doi: 10.1016/S0076-6879(96)66012-1
|
|
licence: ["PUBLIC DOMAIN"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- database:
|
|
type: value
|
|
description: Value must be a valid Entrez database name ('assembly', etc).
|
|
- uid:
|
|
type: value
|
|
description: Unique Identifier (UID) of record in NCBI database. Cannot be used at the same time as uids_file
|
|
- uids_file:
|
|
type: file
|
|
description: Text file containing multiple UIDs. Cannot be used at the same time as uid.
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
- xml:
|
|
type: file
|
|
description: Query result in XML format
|
|
pattern: "*.xml"
|
|
|
|
authors:
|
|
- "@alxndrdiaz"
|