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1 <?xml version="1.0" encoding="UTF-8"?>
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2 <tool id="FASTQ_replace_dots_for_N" name="FASTQ_replace_dots_for_N">
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3 <description>Replace DOTs for Ns in sequences in FASTQ files.</description>
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4 <command interpreter="python">
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5 FASTQ_replace_dots_for_N.py $input > $output
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6 </command>
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7
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8 <inputs>
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9 <param name="input" type="data" format="fastq" label="Alignment file" help="The input FASTQ file with dots inside the sequences." />
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10 </inputs>
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11
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12 <outputs>
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13 <data format="fastq" name="output" label="${tool.name} on ${alignments[0].file.hid}: ${alignments[0].file.name}" />
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14 </outputs>
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15
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16 <help>
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17 FASTQ_replace_dots_for_N
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18 </help>
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19 </tool>
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