Mercurial > repos > nilesh > rseqc
comparison bam2wig.xml @ 53:080fd5739bb4 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 734a31ae8ba22f0d75bda696c4856ee3e274e1ba
| author | iuc |
|---|---|
| date | Tue, 20 Mar 2018 05:37:48 -0400 |
| parents | 09846d5169fa |
| children | dbedfc5f5a3c |
comparison
equal
deleted
inserted
replaced
| 52:34e4c586e3c0 | 53:080fd5739bb4 |
|---|---|
| 35 '+-,-+' | 35 '+-,-+' |
| 36 #end if | 36 #end if |
| 37 #end if | 37 #end if |
| 38 | 38 |
| 39 #if str($wigsum_type.wigsum_type_selector) == "normalize": | 39 #if str($wigsum_type.wigsum_type_selector) == "normalize": |
| 40 -t ${wigsum.totalwig} | 40 -t ${wigsum_type.totalwig} |
| 41 #end if | 41 #end if |
| 42 | 42 |
| 43 @MULTIHITS@ | 43 @MULTIHITS@ |
| 44 ]]> | 44 ]]> |
| 45 </command> | 45 </command> |
| 79 <output name="output" file="testwig.wig"/> | 79 <output name="output" file="testwig.wig"/> |
| 80 </test> | 80 </test> |
| 81 <test> | 81 <test> |
| 82 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> | 82 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> |
| 83 <param name="chromsize" value="hg19.chrom.sizes"/> | 83 <param name="chromsize" value="hg19.chrom.sizes"/> |
| 84 <param name="multihits_type.multihits_type_selector" value="skipmultihits"/> | 84 <param name="multihits_type_selector" value="skip_multihits"/> |
| 85 <param name="multihits_type.mapq" value="20"/> | 85 <param name="mapq" value="20"/> |
| 86 <output name="output" file="testwig.wig"/> | 86 <output name="output" file="testwig.wig"/> |
| 87 </test> | 87 </test> |
| 88 <test> | 88 <test> |
| 89 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> | 89 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> |
| 90 <param name="chromsize" value="hg19.chrom.sizes"/> | 90 <param name="chromsize" value="hg19.chrom.sizes"/> |
| 91 <param name="strand_specific" value="pair"/> | 91 <param name="strand_specific" value="pair"/> |
| 92 <param name="pair_type" value="sd"/> | 92 <param name="pair_type" value="sd"/> |
| 93 <output name="outputfwd" file="testwig.Forward.wig"/> | 93 <output name="outputfwd" file="testwig.Forward.wig"/> |
| 94 <output name="outputrv" file="testwig.Reverse.wig"/> | 94 <output name="outputrv" file="testwig.Reverse.wig"/> |
| 95 </test> | |
| 96 <test> | |
| 97 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> | |
| 98 <param name="chromsize" value="hg19.chrom.sizes"/> | |
| 99 <param name="wigsum_type_selector" value="normalize"/> | |
| 100 <param name="totalwig" value="100"/> | |
| 101 <output name="output" file="testwig_wigsum100.wig"/> | |
| 95 </test> | 102 </test> |
| 96 </tests> | 103 </tests> |
| 97 | 104 |
| 98 <help><![CDATA[ | 105 <help><![CDATA[ |
| 99 bam2wig.py | 106 bam2wig.py |