Mercurial > repos > iuc > dada2_plotqualityprofile

comparison dada2_plotQualityProfile.xml @ 2:73c03d6288f1 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit f2a33fe115fef9d711112b53136cf7619f1b19be"
author iuc
date Mon, 16 Mar 2020 11:32:12 +0000
parents 944958061b0f
children 2a4b0d0d317c
comparison
equal deleted inserted replaced
1:fcfd3dec8e93 2:73c03d6288f1
107 <collection type="paired"> 107 <collection type="paired">
108 <element name="forward" value="F3D0_S188_L001_R1_001.fastq.gz" ftype="fastqsanger.gz"/> 108 <element name="forward" value="F3D0_S188_L001_R1_001.fastq.gz" ftype="fastqsanger.gz"/>
109 <element name="reverse" value="F3D0_S188_L001_R2_001.fastq.gz" ftype="fastqsanger.gz"/> 109 <element name="reverse" value="F3D0_S188_L001_R2_001.fastq.gz" ftype="fastqsanger.gz"/>
110 </collection> 110 </collection>
111 </element> 111 </element>
112 <element name="F3D141_S207_L001">
113 <collection type="paired">
114 <element name="forward" value="F3D141_S207_L001_R1_001.fastq.gz" ftype="fastqsanger.gz"/>
115 <element name="reverse" value="F3D141_S207_L001_R2_001.fastq.gz" ftype="fastqsanger.gz"/>
116 </collection>
117 </element>
112 </collection> 118 </collection>
113 </param> 119 </param>
114 <param name="batch_cond|aggregate" value="FALSE"/> 120 <param name="batch_cond|aggregate" value="FALSE"/>
115 <output name="output_fwd" value="qualityProfile.pdf" ftype="pdf" compare="sim_size" delta="15000"/> 121 <output name="output_fwd" value="qualityProfile_fwd.pdf" ftype="pdf" compare="sim_size" delta="15000"/>
116 <output name="output_rev" value="qualityProfile.pdf" ftype="pdf" compare="sim_size" delta="15000"/> 122 <output name="output_rev" value="qualityProfile_rev.pdf" ftype="pdf" compare="sim_size" delta="15000"/>
117 </test> 123 </test>
118 <!-- paired-separate joint, no-aggregate (sim_size because element ids differ) --> 124 <!-- paired-separate joint, no-aggregate (sim_size because element ids differ) -->
119 <test expect_num_outputs="2"> 125 <test expect_num_outputs="2">
120 <param name="batch_cond|batch_select" value="joint"/> 126 <param name="batch_cond|batch_select" value="joint"/>
121 <param name="batch_cond|paired_cond|paired_select" value="separate"/> 127 <param name="batch_cond|paired_cond|paired_select" value="separate"/>
122 <param name="batch_cond|paired_cond|reads" value="F3D0_S188_L001_R1_001.fastq.gz" ftype="fastqsanger.gz"/> 128 <param name="batch_cond|paired_cond|reads" value="F3D0_S188_L001_R1_001.fastq.gz,F3D141_S207_L001_R1_001.fastq.gz" ftype="fastqsanger.gz"/>
123 <param name="batch_cond|paired_cond|sdaer" value="F3D0_S188_L001_R2_001.fastq.gz" ftype="fastqsanger.gz"/> 129 <param name="batch_cond|paired_cond|sdaer" value="F3D0_S188_L001_R2_001.fastq.gz,F3D141_S207_L001_R2_001.fastq.gz" ftype="fastqsanger.gz"/>
124 <param name="batch_cond|aggregate" value="FALSE"/> 130 <param name="batch_cond|aggregate" value="FALSE"/>
125 <output name="output_fwd" value="qualityProfile.pdf" ftype="pdf" compare="sim_size" delta="15000"/> 131 <output name="output_fwd" value="qualityProfile_fwd.pdf" ftype="pdf" compare="sim_size" delta="15000"/>
126 <output name="output_rev" value="qualityProfile.pdf" ftype="pdf" compare="sim_size" delta="15000"/> 132 <output name="output_rev" value="qualityProfile_fwd.pdf" ftype="pdf" compare="sim_size" delta="15000"/>
127 </test> 133 </test>
128 <!-- single, non-batch, aggregate, small sample --> 134 <!-- single, non-batch, aggregate, small sample -->
129 <test expect_num_outputs="1"> 135 <test expect_num_outputs="1">
130 <param name="batch_cond|batch_select" value="joint"/> 136 <param name="batch_cond|batch_select" value="joint"/>
131 <param name="batch_cond|paired_cond|paired_select" value="single"/> 137 <param name="batch_cond|paired_cond|paired_select" value="single"/>
132 <param name="batch_cond|paired_cond|reads" value="F3D0_S188_L001_R1_001.fastq.gz,F3D0_S188_L001_R2_001.fastq.gz" ftype="fastqsanger.gz"/> 138 <param name="batch_cond|paired_cond|reads" value="F3D0_S188_L001_R1_001.fastq.gz,F3D0_S188_L001_R2_001.fastq.gz" ftype="fastqsanger.gz"/>
133 <param name="n" value="10000"/> 139 <param name="n" value="10000"/>
134 <param name="batch_cond|aggregate" value="TRUE"/> 140 <param name="batch_cond|aggregate" value="TRUE"/>
135 <output name="output" value="qualityProfile.pdf" ftype="pdf" compare="sim_size" delta="15000"/> 141 <output name="output" value="qualityProfile_fwd.pdf" ftype="pdf" compare="sim_size" delta="16000"/>
136 </test> 142 </test>
137 143
138 <!-- paired, batch --> 144 <!-- paired, batch -->
139 <test expect_num_outputs="2"> 145 <test expect_num_outputs="2">
140 <param name="batch_cond|batch_select" value="batch"/> 146 <param name="batch_cond|batch_select" value="batch"/>