Mercurial > repos > gbcs-embl-heidelberg > je_clip

comparison macros.xml @ 6:3c7fa5621091 draft

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planemo upload for repository https://git.embl.de/grp-gbcs/Je/tree/master/src/galaxy commit 25e8fd2946fda4b9d280f2178841b2231bc3a3d0
author gbcs-embl-heidelberg
date Fri, 15 Sep 2017 08:16:46 -0400
parents 8b4ccdf5f7dd
children fcc1a953b3e0
comparison
equal deleted inserted replaced
5:8b4ccdf5f7dd 6:3c7fa5621091
25 #end if 25 #end if
26 </token> 26 </token>
27 27
28 <xml name="paired_options"> 28 <xml name="paired_options">
29 <when value="paired"> 29 <when value="paired">
30 <param name="input_1" format="fastq,gz" type="data" label="FASTQ file #1"/> 30 <param name="input_1" format="fastq,fastq.gz,fastqsanger,fastqsanger.gz" type="data" label="FASTQ file #1"/>
31 <param name="input_2" format="fastq,gz" type="data" label="FASTQ file #2"/> 31 <param name="input_2" format="fastq,fastq.gz,fastqsanger,fastqsanger.gz" type="data" label="FASTQ file #2"/>
32 <yield /> 32 <yield />
33 <param name="SAME_HEADERS" type="boolean" 33 <param name="SAME_HEADERS" type="boolean"
34 label="Ensure headers of both reads of a pair are identical (SAME_HEADERS)" 34 label="Ensure headers of both reads of a pair are identical (SAME_HEADERS)"
35 help="Only applies if barcodes are added to the header (option ADD)" 35 help="Only applies if barcodes are added to the header (option ADD)"
36 truevalue="true" 36 truevalue="true"
37 falsevalue="false" checked="false"/> 37 falsevalue="false" checked="false"/>
38 </when> 38 </when>
39 <when value="paired_collection"> 39 <when value="paired_collection">
40 <param name="input_1" format="fastq,gz" type="data_collection" collection_type="paired" 40 <param name="input_1" format="fastq,fastq.gz,fastqsanger,fastqsanger.gz" type="data_collection" collection_type="paired"
41 label="FASTQ Paired Dataset"/> 41 label="FASTQ Paired Dataset"/>
42 <yield /> 42 <yield />
43 <param name="SAME_HEADERS" type="boolean" 43 <param name="SAME_HEADERS" type="boolean"
44 label="Ensure headers of both reads of a pair are identical (SAME_HEADERS)" 44 label="Ensure headers of both reads of a pair are identical (SAME_HEADERS)"
45 help="Only applies if barcodes are added to the header (option ADD)" 45 help="Only applies if barcodes are added to the header (option ADD)"
68 <option value="single">Single-end</option> 68 <option value="single">Single-end</option>
69 <option value="paired">Paired-end</option> 69 <option value="paired">Paired-end</option>
70 <option value="paired_collection">Paired-end Dataset Collection</option> 70 <option value="paired_collection">Paired-end Dataset Collection</option>
71 </param> 71 </param>
72 <when value="single"> 72 <when value="single">
73 <param name="input_1" format="fastq,gz" type="data" label="FASTQ file"/> 73 <param name="input_1" format="fastq,fastq.gz,fastqsanger,fastqsanger.gz" type="data" label="FASTQ file"/>
74 <param name="I1" type="data" format="fastq,gz" label="First Index File"/> 74 <param name="I1" type="data" format="fastq,fastq.gz,fastqsanger,fastqsanger.gz" label="First Index File"/>
75 </when> 75 </when>
76 <expand macro="paired_options"> 76 <expand macro="paired_options">
77 <param name="I1" type="data" format="fastq,gz" label="First Index File"/> 77 <param name="I1" type="data" format="fastq,fastq.gz,fastqsanger,fastqsanger.gz" label="First Index File"/>
78 <conditional name="I2_CONDITIONAL"> 78 <conditional name="I2_CONDITIONAL">
79 <param name="I2_AVAILABLE" type="select" label="Do you have a second index file?"> 79 <param name="I2_AVAILABLE" type="select" label="Do you have a second index file?">
80 <option value="true">Yes</option> 80 <option value="true">Yes</option>
81 <option value="false" selected="true">No</option> 81 <option value="false" selected="true">No</option>
82 </param> 82 </param>
83 <when value="true"> 83 <when value="true">
84 <param name="I2" type="data" format="fastq,gz" label="Second Index File"/> 84 <param name="I2" type="data" format="fastq,fastq.gz,fastqsanger,fastqsanger.gz" label="Second Index File"/>
85 <expand macro="bred_conditional"/> 85 <expand macro="bred_conditional"/>
86 </when> 86 </when>
87 <when value="false"/> 87 <when value="false"/>
88 </conditional> 88 </conditional>
89 </expand> 89 </expand>
96 <option value="single">Single-end</option> 96 <option value="single">Single-end</option>
97 <option value="paired">Paired-end</option> 97 <option value="paired">Paired-end</option>
98 <option value="paired_collection">Paired-end Dataset Collection</option> 98 <option value="paired_collection">Paired-end Dataset Collection</option>
99 </param> 99 </param>
100 <when value="single"> 100 <when value="single">
101 <param name="input_1" format="fastq,gz" type="data" label="FASTQ file"/> 101 <param name="input_1" format="fastq,fastq.gz,fastqsanger,fastqsanger.gz" type="data" label="FASTQ file"/>
102 </when> 102 </when>
103 <expand macro="paired_options"> 103 <expand macro="paired_options">
104 <yield /> 104 <yield />
105 </expand> 105 </expand>
106 </conditional> 106 </conditional>