comparison VCF_to_VariantDB.xml @ 9:3b27cae9b359 draft

New Version. VariantDB checks for Genome Build matching using the Galaxy dbkey variable.

8:db44ff975de8

<tool id="VCF_to_DB_rev" name="VCF to VariantDB" version="0.1.2">
  <description></description>
  <expand macro="requirements" />
  <macros>
    <import>VCF_to_VariantDB_macros.xml</import>
  </macros>

      ## input file
      -v $input1
      -V $__app__.security.encode_id( '%s' % $input1.id )
      ## user email, for identification in DataBase
      -u $__user_email__
      
      ## OUTPUT FILE 
	-o $output1

      ## SAMPLE GENDER
      #if $samplegender != "undef":

9:3b27cae9b359

<tool id="VCF_to_DB_rev" name="VCF to VariantDB" version="0.1.3">
  <description></description>
  <expand macro="requirements" />
  <macros>
    <import>VCF_to_VariantDB_macros.xml</import>
  </macros>

      ## input file
      -v $input1
      -V $__app__.security.encode_id( '%s' % $input1.id )
      ## user email, for identification in DataBase
      -u $__user_email__
      ## source file dbkey ( match against variantdb genome build)
      -G ${input1.dbkey} 
      ## OUTPUT FILE 
	-o $output1

      ## SAMPLE GENDER
      #if $samplegender != "undef":