Mercurial > repos > iuc > concoct

diff concoct.xml @ 6:16672a3c9b65 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/concoct commit 6bcf71ac8fae2a84117069dc00b3c4cac6d20fa5
author iuc
date Sat, 26 Aug 2023 02:42:23 +0000
parents 28e8d2bd6aba
children eae7ee167917
line wrap: on
line diff
--- a/concoct.xml	Wed Aug 03 13:57:08 2022 +0000
+++ b/concoct.xml	Sat Aug 26 02:42:23 2023 +0000
@@ -38,7 +38,7 @@
             <param argument="--kmer_length" type="integer" min="0" value="4" label="Kmer length"/>
             <param argument="--length_threshold" type="integer" min="0" value="1000" label="Sequence length threshold" help="Contigs shorter than this value will not be included"/>
             <param argument="--read_length" type="integer" min="0" value="100" label="Read length for coverage"/>
-            <param argument="--total_percentage_pca" type="integer" min="0" value="100" label="Percentage of variance explained by the principal components for the combined data"/>
+            <param argument="--total_percentage_pca" type="integer" min="0" value="90" label="Percentage of variance explained by the principal components for the combined data"/>
             <param argument="--seed" type="integer" min="0" value="1" label="Seed for clustering" help="Zero value will use random seed"/>
             <param argument="--iterations" type="integer" min="0" value="500" label="Maximum number of iterations for the Variational Bayes Gaussian Mixture Models (VBGMM)"/>
             <param argument="--no_cov_normalization" type="boolean" truevalue="--no_cov_normalization" falsevalue="" checked="false" label="Skip normalization and only do log transorm of the coverage?" help="By default, the coverage is normalized for samples, then normalized for contigs and finally log transformed. By setting this flag you skip the normalization and only do log transorm of the   coverage."/>
@@ -90,7 +90,7 @@
             </output>
             <output name="output_pca_transformed" ftype="csv">
                 <assert_contents>
-                    <has_size value="834200" delta="10"/>
+                    <has_size value="834200" delta="50"/>
                     <has_text text="contig-21000001"/>
                 </assert_contents>
             </output>
@@ -127,7 +127,7 @@
             </output>
             <output name="output_pca_transformed" ftype="csv">
                 <assert_contents>
-                    <has_size value="834200" delta="10"/>
+                    <has_size value="834200" delta="50"/>
                     <has_text text="contig-21000001"/>
                 </assert_contents>
             </output>