Mercurial > repos > mvdbeek > r_goseq_1_22_0

diff get_length_and_gc_content.xml @ 9:d1eed994287a draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/goseq_1_22_0 commit fdd0811efc61c31f88ff17096fbe8ee8cfacd766-dirty
author mvdbeek
date Thu, 25 Feb 2016 06:16:23 -0500
parents f036e2d66c85
children 1802ccf465b8
line wrap: on
line diff
--- a/get_length_and_gc_content.xml	Thu Feb 25 06:14:09 2016 -0500
+++ b/get_length_and_gc_content.xml	Thu Feb 25 06:16:23 2016 -0500
@@ -7,9 +7,9 @@
     <command interpreter="Rscript">
         get_length_and_gc_content.r --gtf "$gtf"
         #if $fastaSource.genomeSource == "indexed":
-            --fasta "$fastaSource.fasta.fields.path"
+            --fasta "$fastaSource.fasta_pre_installed.fields.path"
         #else:
-            --fasta "$fastaSource.fasta"
+            --fasta "$fastaSource.fasta_history"
         #end if
         --output "output"
     </command>
@@ -21,12 +21,12 @@
                 <option value="history">Use fasta from history</option>
             </param>
         <when value="indexed">
-            <param help="Select the fasta file from a list of pre-installed genomes" label="Select a fasta sequence" name="fasta" type="select">
+            <param help="Select the fasta file from a list of pre-installed genomes" label="Select a fasta sequence" name="fasta_pre_installed" type="select">
               <options from_data_table="all_fasta"/>
             </param>
         </when>
         <when value="history">
-            <param format="fasta" label="Select a fasta file, to serve as index reference" name="fasta" type="data" />
+            <param format="fasta_history" label="Select a fasta file, to serve as index reference" name="fasta" type="data" />
         </when>
         </conditional>
     </inputs>