Mercurial > repos > iuc > genomescope
changeset 3:460fad600dce draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/genomescope commit 0d2b1b7f07cf050b76bb905540f382be7e1cd68f
| author | iuc |
|---|---|
| date | Fri, 02 Aug 2024 15:39:12 +0000 |
| parents | 01210c4e9144 |
| children | |
| files | genomescope.xml test-data/genomescope-out1-1.tab test-data/genomescope-out1-1.txt test-data/genomescope-out1-2.txt test-data/genomescope-out1-3.txt |
| diffstat | 5 files changed, 13 insertions(+), 13 deletions(-) [+] |
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--- a/genomescope.xml Thu Aug 18 12:50:44 2022 +0000 +++ b/genomescope.xml Fri Aug 02 15:39:12 2024 +0000 @@ -1,8 +1,8 @@ <tool id="genomescope" name="GenomeScope" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.01"> <description>reference-free genome profiling</description> <macros> - <token name="@TOOL_VERSION@">2.0</token> - <token name="@VERSION_SUFFIX@">2</token> + <token name="@TOOL_VERSION@">2.0.1</token> + <token name="@VERSION_SUFFIX@">0</token> </macros> <requirements> <requirement type="package" version="@TOOL_VERSION@">genomescope2</requirement> @@ -204,7 +204,7 @@ <output name="summary" ftype="txt" lines_diff="2"> <assert_contents> <has_line line="initial heterozygosities = 0.04,0.01"/> - <has_text text="Homozygous (aaa) 6.03606% 100%"/> + <has_text text="Homozygous (aaa) 7.70599% 100%"/> </assert_contents> </output> </test>
--- a/test-data/genomescope-out1-1.tab Thu Aug 18 12:50:44 2022 +0000 +++ b/test-data/genomescope-out1-1.tab Fri Aug 02 15:39:12 2024 +0000 @@ -1,1 +1,1 @@ -0.0286284442637493 0.0103961720120016 22.1589612104347 0.458078023574561 151946613.878237 0 +0.0286284442637044 0.0103961720119177 22.158961210429 0.458078023602553 154970224.342805 0
--- a/test-data/genomescope-out1-1.txt Thu Aug 18 12:50:44 2022 +0000 +++ b/test-data/genomescope-out1-1.txt Fri Aug 02 15:39:12 2024 +0000 @@ -6,7 +6,7 @@ Estimate Std. Error t value Pr(>|t|) d 2.863e-02 4.312e-04 66.39 <2e-16 *** r1 1.040e-02 3.291e-05 315.91 <2e-16 *** -kmercov 2.216e+01 4.424e-03 5008.85 <2e-16 *** +kmercov 2.216e+01 4.424e-03 5008.84 <2e-16 *** bias 4.581e-01 2.786e-03 164.42 <2e-16 *** length 1.065e+08 9.361e+04 1137.81 <2e-16 *** ---
--- a/test-data/genomescope-out1-2.txt Thu Aug 18 12:50:44 2022 +0000 +++ b/test-data/genomescope-out1-2.txt Fri Aug 02 15:39:12 2024 +0000 @@ -1,5 +1,5 @@ GenomeScope version 2.0 -input file = /tmp/tmpiqlcd57_/files/3/b/b/dataset_3bb1f7de-024a-4b3c-aa68-e735f06791c1.dat +input file = /tmp/tmpn_n7x4vk/files/7/f/0/dataset_7f0c0112-b229-48e2-bc24-01039c9665e6.dat output directory = . p = 2 k = 21 @@ -8,8 +8,8 @@ property min max Homozygous (aa) 98.9538% 98.967% Heterozygous (ab) 1.03304% 1.0462% -Genome Haploid Length 151,885,967 bp 152,007,309 bp -Genome Repeat Length 48,469,025 bp 48,507,747 bp +Genome Haploid Length 154,908,370 bp 155,032,128 bp +Genome Repeat Length 51,491,429 bp 51,532,566 bp Genome Unique Length 103,416,942 bp 103,499,562 bp Model Fit 69.6762% 98.569% -Read Error Rate 0.349793% 0.349793% +Read Error Rate 0.34322% 0.34322%
--- a/test-data/genomescope-out1-3.txt Thu Aug 18 12:50:44 2022 +0000 +++ b/test-data/genomescope-out1-3.txt Fri Aug 02 15:39:12 2024 +0000 @@ -1,6 +1,6 @@ starting -round 0 trimming to 8 trying 2p peak model... converged. score: 759966810268782 -round 1 trimming to 13 trying 2p peak model... converged. score: 758881495868533 -round 2 trimming to 18 trying 2p peak model... converged. score: 752379509919454 -round 3 trimming to 23 trying 2p peak model... converged. score: 747542116457350 +round 0 trimming to 8 trying 2p peak model... converged. score: 759966810472785 +round 1 trimming to 13 trying 2p peak model... converged. score: 758881496099282 +round 2 trimming to 18 trying 2p peak model... converged. score: 752379509616676 +round 3 trimming to 23 trying 2p peak model... converged. score: 747542116460650 done