comparison convert.xml @ 21:c46406466625 draft

Uploaded

20:aba6d9b1c1f1

  <description>between different sequence data formats</description>
  <macros>
    <import>toolshed_macros.xml</import>
  </macros>
  <expand macro="requirements"/>
  <version_command>mimodd version -q</version_command>
  <command>
  #if $str($mode.split_on_rgs) or $str($mode.oformat)=="fastq" or $str($mode.oformat)=="gz":
    echo "Your input data is now getting processed by MiModD. The output will be split into several files based on the read groups found in the input.\nThis history item will remain in the busy state until the job is finished.\nAfter the job is showing as finished, Galaxy will start adding the results files to your history one by one.\n\nThis may take a while to complete! \n\nYou should refresh your history to see if new files have arrived.\n\nThis message is for your information only and can be deleted from the history once the job has finished." > $output_split_on_read_groups;

    mkdir converted_data;
  #end if
  
	mimodd convert 
 
  	#for $i in $mode.input_list
	    "${i.file1}"
	    #if $str($mode.iformat) in ("fastq_pe", "gz_pe"):
		"${i.file2}"

21:c46406466625

  <description>between different sequence data formats</description>
  <macros>
    <import>toolshed_macros.xml</import>
  </macros>
  <expand macro="requirements"/>
  <version_command>python3 -m MiModD version -q</version_command>
  <command>
  #if $str($mode.split_on_rgs) or $str($mode.oformat)=="fastq" or $str($mode.oformat)=="gz":
    echo "Your input data is now getting processed by MiModD. The output will be split into several files based on the read groups found in the input.\nThis history item will remain in the busy state until the job is finished.\nAfter the job is showing as finished, Galaxy will start adding the results files to your history one by one.\n\nThis may take a while to complete! \n\nYou should refresh your history to see if new files have arrived.\n\nThis message is for your information only and can be deleted from the history once the job has finished." > $output_split_on_read_groups;

    mkdir converted_data;
  #end if
  
	python3 -m MiModD convert 
 
  	#for $i in $mode.input_list
	    "${i.file1}"
	    #if $str($mode.iformat) in ("fastq_pe", "gz_pe"):
		"${i.file2}"