banana.yaml

!mobyle/program
name: banana
title: banana
description: Plot bending and curvature data for B-DNA
inputs: !mobyle/inputparagraph
    children:
    - !mobyle/inputprogramparagraph
        prompt: Input section
        name: input
        children:
        - !mobyle/inputprogramparameter
            prompt: Sequence option
            format: ("", " -sequence=" + str(value))[value is not None]
            simple: true
            argpos: 1
            mandatory: true
            name: sequence
            command: false
            type: !mobyle/formattedtype
                format_terms: ['EDAM_format:1927', 'EDAM_format:2200', 'EDAM_format:1935',
                    'EDAM_format:1936', 'EDAM_format:1948', 'EDAM_format:1948', 'EDAM_format:1957',
                    'EDAM_format:2188']
                data_terms: ['EDAM_data:2977']
        - !mobyle/inputprogramparameter {prompt: Dna base trimer roll angles data
                file, format: '("", " -anglesfile=" + str(value))[value is not None
                ]', argpos: 2, name: anglesfile, command: false}
    - !mobyle/inputprogramparagraph
        prompt: Output section
        name: output
        children:
        - !mobyle/inputprogramparameter
            prompt: Choose the graph output format
            format: (" -graph=" + str(vdef), " -graph=" + str(value))[value is not
                None and value!=vdef]
            argpos: 3
            name: graph
            command: false
            type: !mobyle/stringtype
                default: png
                options:
                - {label: Png, value: png}
                - {label: Gif, value: gif}
                - {label: Cps, value: cps}
                - {label: Ps, value: ps}
                - {label: Meta, value: meta}
                - {label: Data, value: data}
        - !mobyle/inputprogramparameter
            prompt: Name of the output graph
            format: ("" , " -goutfile=" + str(value))[value is not None]
            argpos: 4
            name: goutfile
            command: false
            type: !mobyle/stringtype {default: banana_graph}
        - !mobyle/inputprogramparameter
            prompt: Number of residues to be displayed on each line
            format: ("", " -residuesperline=" + str(value))[value is not None and
                value!=vdef]
            argpos: 5
            name: residuesperline
            command: false
            type: !mobyle/integertype {default: 50}
        - !mobyle/inputprogramparameter
            prompt: Name of the output file (outfile)
            format: ("" , " -outfile=" + str(value))[value is not None]
            argpos: 6
            name: outfile
            command: false
            type: !mobyle/stringtype {default: banana.outfile}
    - !mobyle/inputprogramparameter
        prompt: Turn off any prompting
        format: '" -auto -stdout"'
        argpos: 7
        name: auto
        command: false
        hidden: true
        type: !mobyle/stringtype {}
outputs: !mobyle/outputparagraph
    children:
    - !mobyle/outputprogramparagraph
        prompt: Output section
        name: output
        children:
        - !mobyle/outputprogramparameter
            prompt: Graph file
            filenames: '"*.png"'
            name: outgraph_png
            precond: {graph: png}
        - !mobyle/outputprogramparameter
            prompt: Graph file
            filenames: '"*.gif"'
            name: outgraph_gif
            precond: {graph: gif}
        - !mobyle/outputprogramparameter
            prompt: Graph file
            filenames: '"*.ps"'
            name: outgraph_ps
            precond:
                '#or':
                - {graph: ps}
                - {graph: cps}
        - !mobyle/outputprogramparameter
            prompt: Graph file
            filenames: '"*.meta"'
            name: outgraph_meta
            precond: {graph: meta}
        - !mobyle/outputprogramparameter
            prompt: Graph file
            filenames: '"*.dat"'
            name: outgraph_data
            precond: {graph: data}
        - !mobyle/outputprogramparameter
            prompt: Outfile_out option
            filenames: outfile
            name: outfile_out
            type: !mobyle/formattedtype
                data_terms: ['EDAM_data:2048']
    - !mobyle/outputprogramparameter
        prompt: Standard output
        filenames: '"banana.out"'
        name: stdout
        output_type: stdout
        type: !mobyle/formattedtype
            data_terms: ['EDAM_data:2048']
    - !mobyle/outputprogramparameter
        prompt: Standard error
        filenames: '"banana.err"'
        name: stderr
        type: !mobyle/formattedtype
            data_terms: ['EDAM_data:2048']
operations: ['EDAM_operation:0461']
topics: ['EDAM_topic:0097']
documentation_links: ['http://bioweb2.pasteur.fr/docs/EMBOSS/banana.html', 'http://emboss.sourceforge.net/docs/themes']
command: banana
env: {}