[
    {
        "id": "fastq2fasta",
        "name": "fastq to fasta",
        "article": "",
        "website": "",
        "git": "",
        "description": "Conversion of a fastq file to a fasta file",
        "version": "",
        "documentation": "",
        "multiqc": "custom",
        "commands": [
            {
                "name": "fastq2fasta_SE",
                "cname": "fastq to fasta SE",
                "command": "",
                "category": "format_conversion",
                "output_dir": "fastq2fasta",
                "inputs": [
                    {
                        "name": "read",
                        "type": "reads"
                    }
                ],
                "outputs": [
                    {
                        "name": "fasta",
                        "type": "fasta",
                        "file": "{sample}.fasta",
                        "description": "fasta file"
                    }
                ],
                "options": []
            },
            {
                "name": "fastq2fasta_PE",
                "cname": "fastq to fasta PE",
                "command": "",
                "category": "format_conversion",
                "output_dir": "fastq2fasta",
                "inputs": [
                    {
                        "name": "read",
                        "type": "reads"
                    },
                    {
                        "name": "read2",
                        "type": "reads"
                    }
                ],
                "outputs": [
                    {
                        "name": "fasta",
                        "type": "fasta",
                        "file": "{sample}_1.fasta",
                        "description": "fasta R1 file"
                    },
                    {
                        "name": "fasta2",
                        "type": "fasta",
                        "file": "{sample}_2.fasta",
                        "description": "fasta R2 file"
                    }
                ],
                "options": []
            }
        ],
        "install": {
            "biopython": [
                "pip3 install biopython==1.76"
            ]
        },
        "citations": [],
        "yaml": "{\n  id: fastq2fasta,\n  name: fastq to fasta ,\n  article: \"\",\n  website: \"\",\n  git: \"\",\n  description: \"Conversion of a fastq file to a fasta file\",\n  version: \"\",\n  documentation: \"\",\n  multiqc: \"custom\",\n  commands:\n    [\n      {\n        name: fastq2fasta_SE,\n        cname: fastq to fasta SE,\n        command: \"\",\n        category: \"format_conversion\",\n        output_dir: fastq2fasta,\n        inputs: [{ name: read, type: \"reads\" }],\n        outputs: [{ name: fasta, type: \"fasta\", file: \"{sample}.fasta\", description: \"fasta file\"}],\n        options: [\n        ],\n      },\n      {\n        name: fastq2fasta_PE,\n        cname: fastq to fasta PE,\n        command: \"\",\n        category: \"format_conversion\",\n        output_dir: fastq2fasta,\n        inputs: [{ name: read, type: \"reads\" }, { name: read2, type: \"reads\" }],\n        outputs: [\n          { name: fasta, type: \"fasta\", file: \"{sample}_1.fasta\", description: \"fasta R1 file\"},\n          { name: fasta2, type: \"fasta\", file: \"{sample}_2.fasta\", description: \"fasta R2 file\"}\n        ],\n        options: [\n        ],\n      },\n    ],\n  install:\n    {\n      biopython: [\n        \"pip3 install biopython==1.76\"\n      ]\n    },\n  citations:\n    {},\n}\n"
    }
]