| Previous changeset 52:34e4c586e3c0 (2017-11-21) Next changeset 54:5873cd7afb67 (2018-06-13) |
|
Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 734a31ae8ba22f0d75bda696c4856ee3e274e1ba |
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modified:
bam2wig.xml test-data/output.RNA_fragment_size.txt test-data/output.tin.summary.txt |
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added:
test-data/testwig_wigsum100.wig |
| b |
| diff -r 34e4c586e3c0 -r 080fd5739bb4 bam2wig.xml --- a/bam2wig.xml Tue Nov 21 14:55:32 2017 -0500 +++ b/bam2wig.xml Tue Mar 20 05:37:48 2018 -0400 |
| [ |
| @@ -37,7 +37,7 @@ #end if #if str($wigsum_type.wigsum_type_selector) == "normalize": - -t ${wigsum.totalwig} + -t ${wigsum_type.totalwig} #end if @MULTIHITS@ @@ -81,8 +81,8 @@ <test> <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> <param name="chromsize" value="hg19.chrom.sizes"/> - <param name="multihits_type.multihits_type_selector" value="skipmultihits"/> - <param name="multihits_type.mapq" value="20"/> + <param name="multihits_type_selector" value="skip_multihits"/> + <param name="mapq" value="20"/> <output name="output" file="testwig.wig"/> </test> <test> @@ -93,6 +93,13 @@ <output name="outputfwd" file="testwig.Forward.wig"/> <output name="outputrv" file="testwig.Reverse.wig"/> </test> + <test> + <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> + <param name="chromsize" value="hg19.chrom.sizes"/> + <param name="wigsum_type_selector" value="normalize"/> + <param name="totalwig" value="100"/> + <output name="output" file="testwig_wigsum100.wig"/> + </test> </tests> <help><![CDATA[ |
| b |
| diff -r 34e4c586e3c0 -r 080fd5739bb4 test-data/output.RNA_fragment_size.txt --- a/test-data/output.RNA_fragment_size.txt Tue Nov 21 14:55:32 2017 -0500 +++ b/test-data/output.RNA_fragment_size.txt Tue Mar 20 05:37:48 2018 -0400 |
| b |
| @@ -1,6 +1,6 @@ chrom tx_start tx_end symbol frag_count frag_mean frag_median frag_std chr1 11873 14409 NR_046018 1 0 0 0 -chr1 14361 29370 NR_024540 14 66.5 51.0 41.1195990809 +chr1 14361 29370 NR_024540 14 66.5 51.0 41.119599080869314 chr1 17368 17436 NR_106918 0 0 0 0 chr1 17368 17436 NR_107062 0 0 0 0 chr1 34610 36081 NR_026818 0 0 0 0 |
| b |
| diff -r 34e4c586e3c0 -r 080fd5739bb4 test-data/output.tin.summary.txt --- a/test-data/output.tin.summary.txt Tue Nov 21 14:55:32 2017 -0500 +++ b/test-data/output.tin.summary.txt Tue Mar 20 05:37:48 2018 -0400 |
| b |
| @@ -1,2 +1,2 @@ Bam_file TIN(mean) TIN(median) TIN(stdev) -input.bam 8.87096774194 8.87096774194 0.0 +input.bam 8.870967741935486 8.870967741935486 0.0 |
| b |
| diff -r 34e4c586e3c0 -r 080fd5739bb4 test-data/testwig_wigsum100.wig --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/testwig_wigsum100.wig Tue Mar 20 05:37:48 2018 -0400 |
| b |
| b'@@ -0,0 +1,1788 @@\n+variableStep chrom=chr13\n+variableStep chrom=chr12\n+variableStep chrom=chr11\n+variableStep chrom=chr10\n+variableStep chrom=chr17\n+variableStep chrom=chr16\n+variableStep chrom=chr15\n+variableStep chrom=chr14\n+variableStep chrom=chr19\n+variableStep chrom=chr18\n+variableStep chrom=chr8\n+variableStep chrom=chr3\n+variableStep 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chrom=chrY\n+variableStep chrom=chrX\n+variableStep chrom=chr9\n+variableStep chrom=chrM\n+variableStep chrom=chr22\n+variableStep chrom=chr20\n+variableStep chrom=chr21\n+variableStep chrom=chr7\n+variableStep chrom=chr6\n+variableStep chrom=chr5\n+variableStep chrom=chr4\n+variableStep chrom=chr2\n' |