Added 2FAST2Q module

modules/nf-core/fast2q/environment.yml

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+channels:
+  - conda-forge
+  - bioconda
+dependencies:
+  - bioconda::fast2q

modules/nf-core/fast2q/fast2q.nf

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+process FAST2Q {
+
+    tag "2FAST2Q"
+    label 'process_single'
+
+    conda "${moduleDir}/environment.yml"
+    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
+        'https://depot.galaxyproject.org/singularity/fast2q' :
+        'quay.io/biocontainers/fast2q' }"
+
+    input:
+    path(fastq)
+
+    output:
+    path("*.*")         , emit: data
+    path "versions.yml" , emit: versions
+
+    when:
+    task.ext.when == null || task.ext.when
+
+    script:
+    def args    = task.ext.args ?: ''
+    def input = "--s ${fastq}" ?: ''
+
+    """
+    mkdir ./2FAST2Q_output
+
+    2fast2q -c --o ./2FAST2Q_output/ $input $args
+
+    cat <<-END_VERSIONS > versions.yml
+    ${task.process}:
+        python: \$(python --version | sed 's/Python //g')
+        2FAST2Q version: \$(2fast2q -v | grep 'Version:' | sed 's/Version: //g')
+    END_VERSIONS
+    """
+}

modules/nf-core/fast2q/meta.yml

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+---
+name: fast2q
+description: A program that counts sequence occurrences in FASTQ files.
+keywords:
+  - CRISPRi
+  - FASTQ
+  - genomics
+tools:
+  - 2FAST2Q:
+      description: |
+        2FAST2Q is ideal for CRISPRi-Seq, and for extracting and counting any kind of information from reads in the fastq format, such as barcodes in Bar-seq experiments.
+        2FAST2Q can work with sequence mismatches, Phred-score, and be used to find and extract unknown sequences delimited by known sequences.
+        2FAST2Q can extract multiple features per read using either fixed positions or delimiting search sequences.
+      homepage: https://github.com/afombravo/2FAST2Q
+      doi: PeerJ 10:e14041
+      licence: ["GPL-3.0-or-later"]
+
+input:
+    type: file
+    description: FASTQ file
+    pattern: "*.{fastq,gz}"
+
+output:
+    type: folder
+    description: Output folder containing all relevant 2FAST2Q outputs
+    pattern: "*.*"
+
+  - versions:
+    - "versions.yml":
+        type: file
+        description: File containing software versions
+        pattern: "versions.yml"
+
+authors:
+  - Afonso Bravo
+maintainers:
+  - Afonso Bravo

modules/nf-core/fast2q/tests/nextflow.config

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+process {
+  withName: 'FAST2Q' {
+    ext.args = '--k --g /mnt/d/modules/modules/nf-core/fast2q/tests/guides.csv'
+  }
+}

modules/nf-core/fast2q/tests/test.nf

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+include { FAST2Q } from './modules/local/fast2q'
+
+workflow {
+    Channel
+        .fromPath('./tests')  // input is a folder
+        .set { fastq_files }
+
+    // Call the FAST2Q process
+    FAST2Q(fastq_files)
+}