modules/gzrt

gzrecover is a program that will attempt to extract any readable data out of a gzip file that has been corrupted

corruptedfastqrecovery

https://github.com/nf-core/modules/[...]/modules/nf-core/gzrt

Description

gzrecover is a program that will attempt to extract any readable data out of a gzip file that has been corrupted

Input

name:type

description

pattern

`meta`
`:map`

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

`fastqgz`
`:file`

FASTQ.gz files

*.{gz}

Output

name:type

description

pattern

`recovered`

`meta`
`:map`

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

`${prefix}*.fastq.gz`
`:file`

Recovered FASTQ.gz files

*.{gz}

`versions_gzrt`

`${task.process}`
`:string`

The name of the process

`gzrt`
`:string`

The name of the tool

`gzrecover -V |& sed '1!d ; s/gzrecover //'`
`:eval`

The expression to obtain the version of the tool

Topics

name:type

description

pattern

`versions`

`${task.process}`
`:string`

The name of the process

`gzrt`
`:string`

The name of the tool

`gzrecover -V |& sed '1!d ; s/gzrecover //'`
`:eval`

The expression to obtain the version of the tool

Tools

gzrt
GPL v2

Unofficial build of the gzip Recovery Toolkit aka gzrecover

urbanophile.com/arenn/hacking/gzrt/gzrt https://github.com/arenn/gzrt no DOI available

modules/gzrt

Description

Input

`meta`
`:map`

`fastqgz`
`:file`

Output

`recovered`

`meta`
`:map`

`${prefix}*.fastq.gz`
`:file`

`versions_gzrt`

`${task.process}`
`:string`

`gzrt`
`:string`

`gzrecover -V |& sed '1!d ; s/gzrecover //'`
`:eval`

Topics

`versions`

`${task.process}`
`:string`

`gzrt`
`:string`

`gzrecover -V |& sed '1!d ; s/gzrecover //'`
`:eval`

Tools

gzrt
GPL v2

included in

maintainers

get in touch

modules/gzrt

Description

Input

meta:map

fastqgz:file

Output

recovered

meta:map

${prefix}*.fastq.gz:file

versions_gzrt

${task.process}:string

gzrt:string

gzrecover -V |& sed '1!d ; s/gzrecover //':eval

Topics

versions

${task.process}:string

gzrt:string

gzrecover -V |& sed '1!d ; s/gzrecover //':eval

Tools

gzrt GPL v2

included in

maintainers

get in touch

`meta`
`:map`

`fastqgz`
`:file`

`recovered`

`meta`
`:map`

`${prefix}*.fastq.gz`
`:file`

`versions_gzrt`

`${task.process}`
`:string`

`gzrt`
`:string`

`gzrecover -V |& sed '1!d ; s/gzrecover //'`
`:eval`

`versions`

`${task.process}`
`:string`

`gzrt`
`:string`

`gzrecover -V |& sed '1!d ; s/gzrecover //'`
`:eval`

gzrt
GPL v2