comparison fastq_paired_end_joiner.xml @ 3:6a7f5da7c76d draft

planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_paired_end_joiner commit 117bc9911926e06d4541daffbb7b0e27d38d67a7

2:41ab1243e8f9

<tool id="fastq_paired_end_joiner" name="FASTQ joiner" version="2.0.0">
  <description>on paired end reads</description>
  <requirements>
    <requirement type="package" version="1.0.0">galaxy_sequence_utils</requirement>
  </requirements>
  <command interpreter="python">fastq_paired_end_joiner.py '$input1_file' '${input1_file.extension[len( 'fastq' ):]}' '$input2_file' '${input2_file.extension[len( 'fastq' ):]}' '$output_file' '$style'</command>
  <inputs>
    <param name="input1_file" type="data" format="fastqsanger,fastqcssanger" label="Left-hand Reads" />
    <param name="input2_file" type="data" format="fastqsanger,fastqcssanger" label="Right-hand Reads" />
    <param name="style" type="select" label="FASTQ Header Style">
      <option value="old" selected="true">old</option>
      <option value="new">new</option>
    </param>
  </inputs>
  <outputs>
    <data name="output_file" format="input" />
  </outputs>
  <tests>

3:6a7f5da7c76d

<tool id="fastq_paired_end_joiner" name="FASTQ joiner" version="2.0.1">
  <description>on paired end reads</description>
  <requirements>
    <requirement type="package" version="1.0.1">galaxy_sequence_utils</requirement>
  </requirements>
  <command interpreter="python">fastq_paired_end_joiner.py '$input1_file' '${input1_file.extension[len( 'fastq' ):]}' '$input2_file' '${input2_file.extension[len( 'fastq' ):]}' '$output_file' '$style' '${paste_sequence}'</command>
  <inputs>
    <param name="input1_file" type="data" format="fastqsanger,fastqcssanger" label="Left-hand Reads" />
    <param name="input2_file" type="data" format="fastqsanger,fastqcssanger" label="Right-hand Reads" />
    <param name="style" type="select" label="FASTQ Header Style">
      <option value="old" selected="true">old</option>
      <option value="new">new</option>
    </param>
    <param name="paste_sequence" type="text" label="Bases to insert between joined reads" value="" help="Values are in Base-space and quality scores of maximal value will be used"/>
  </inputs>
  <outputs>
    <data name="output_file" format="input" />
  </outputs>
  <tests>