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1 <tool id="bam_parallelism_test" name="BAM Parallelism Test" version="2.4.1">
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2 <description>
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3 BAM Parallelism Test
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4 </description>
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5 <parallelism method="multi" split_inputs="normal,tumour" split_mode="by_rname" real_split="False" merge_outputs="output"/>
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6 <command>
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7
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8 {
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9 samtools view -H $normal;
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10 samtools view $normal \$(echo interval.txt) | head -n5;
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11 samtools view $tumour \$(echo interval.txt) | head -n5;
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12 } | samtools view -bS - > $output;
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13
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14 </command>
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15 <inputs>
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16 <param type="data" format="bam" name="normal" label="Normal Alignment BAM"/>
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17 <param type="data" format="bam" name="tumour" label="Tumour Alignment BAM"/>
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18 </inputs>
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19 <outputs>
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20 <data format="bam" name="output"/>
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21 </outputs>
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22 </tool> |
