Mercurial > repos > iuc > qiime_summarize_taxa

changeset 7:65b11616e81d draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qiime/ commit 528ca3b14c2ca9b7ac18a0f9d80a5f4a235707bf
author iuc
date Mon, 16 Oct 2017 05:02:19 -0400
parents ed9f71643ebc
children 403631ded67c
files summarize_taxa.xml
diffstat 1 files changed, 3 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/summarize_taxa.xml	Sat Aug 05 07:59:24 2017 -0400
+++ b/summarize_taxa.xml	Mon Oct 16 05:02:19 2017 -0400
@@ -17,10 +17,10 @@
     $md_as_string
     $absolute_abundance
     #if str( $lower_percentage )
-        -l '$lower_percentage'
+        -l $lower_percentage
     #end if
     #if str( $upper_percentage)
-        -u '$upper_percentage'
+        -u $upper_percentage
     #end if
     $transposed_output
     $suppress_classic_table_output
@@ -42,7 +42,7 @@
         <param argument="--md_as_string" type="boolean" truevalue="--md_as_string" falsevalue="" checked="false" label="Include metadata as string?" help="By default, metadata is included as list"/>
         <param argument="--absolute_abundance" type="boolean" truevalue="--absolute_abundance" falsevalue="" checked="false" label="Report absolute abundance?" help="By default, relative abundance is reported"/>
         <param argument="--lower_percentage" type="float" value="" optional="true" label="Percentage threshold to remove highly present OTU" help="If present, OTUs having higher absolute abundance are trimmed. To remove OTUs that make up more than 5% of the total dataset you would pass 0.05"/>
-        <param argument="--upper_percentage" type="float" value="" label="Percentage threshold to remove lowly present OTU" help="If present, OTUs having lower absolute abundance are trimmed. To remove the OTUs that makes up less than 45% of the total dataset you would pass 0.45"/>
+        <param argument="--upper_percentage" type="float" value="" optional="true" label="Percentage threshold to remove lowly present OTU" help="If present, OTUs having lower absolute abundance are trimmed. To remove the OTUs that makes up less than 45% of the total dataset you would pass 0.45"/>
         <param argument="--transposed_output" type="boolean" truevalue="--transposed_output" falsevalue="" checked="false" label="Transpose output?" help="If checked, the output will be written transposed from the regular output. This is helpful in cases when you want to use Site Painter to visualize your data"/>
         <param argument="--suppress_classic_table_output" type="boolean" truevalue="--suppress_classic_table_output" falsevalue="" checked="false" label="Suppress creation of the classic (TSV) format taxon table?" help="This option is ignored if a mapping file is present"/>
         <param argument="--suppress_biom_table_output" type="boolean" truevalue="--suppress_biom_table_output" falsevalue="" checked="false" label="Suppress creation of the BIOM-formatted taxon table?" help="This option is ignored if a mapping file is present"/>