Mercurial > repos > devteam > picard1106

comparison picard_CollectAlignmentSummaryMetrics.xml @ 146:767bcb0a06df draft

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fixed downsamplesam
author Rayan Chikhi <chikhi@psu.edu>
date Mon, 21 Jul 2014 15:24:40 -0400
parents e18ad84f747a
children
comparison
equal deleted inserted replaced
143:b2ca2d181fb4 146:767bcb0a06df
58 <param name="sorted" value="true" /> 58 <param name="sorted" value="true" />
59 <param name="adaptors" value="" /> 59 <param name="adaptors" value="" />
60 <param name="maxinsert" value="100000" /> 60 <param name="maxinsert" value="100000" />
61 <param name="refGenomeSource" value="history" /> 61 <param name="refGenomeSource" value="history" />
62 <param name="ownFile" value="picard_input_hg18.trimmed.fasta" /> 62 <param name="ownFile" value="picard_input_hg18.trimmed.fasta" />
63 <param name="input_file" value="picard_input_tiny.sam" dbkey="hg18" /> 63 <param name="input_file" value="picard_input_tiny.sam" dbkey="hg18" ftype="sam" />
64 <output name="html_file" file="picard_output_alignment_summary_metrics.html" ftype="html" lines_diff="55"/> 64 <output name="html_file" file="picard_output_alignment_summary_metrics.html" ftype="html" lines_diff="55"/>
65 </test> 65 </test>
66 <test> 66 <test>
67 <param name="out_prefix" value="AsMetricsIndexed" /> 67 <param name="out_prefix" value="AsMetricsIndexed" />
68 <param name="bisulphite" value="false" /> 68 <param name="bisulphite" value="false" />
69 <param name="sorted" value="true" /> 69 <param name="sorted" value="true" />
70 <param name="adaptors" value="" /> 70 <param name="adaptors" value="" />
71 <param name="maxinsert" value="100000" /> 71 <param name="maxinsert" value="100000" />
72 <param name="refGenomeSource" value="indexed" /> 72 <param name="refGenomeSource" value="indexed" />
73 <param name="index" value="hg19" /> 73 <param name="index" value="hg19" />
74 <param name="input_file" value="picard_input_sorted_pair.sam" dbkey="hg19" /> 74 <param name="input_file" value="picard_input_sorted_pair.sam" dbkey="hg19" ftype="sam" />
75 <output name="html_file" file="picard_output_AsMetrics_indexed_hg18_sorted_pair.html" ftype="html" lines_diff="50"/> 75 <output name="html_file" file="picard_output_AsMetrics_indexed_hg18_sorted_pair.html" ftype="html" lines_diff="50"/>
76 </test> 76 </test>
77 </tests> 77 </tests>
78 <help> 78 <help>
79 79