minimap2.xml

<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<graph description="" name="refmapping" service="MGX">
  <composites/>
  <nodes>
    <node id="1" name="mgx" type="Conveyor.MGX.GetMGXJob" x="29" y="24">
      <configuration_items>
        <configuration_item name="password" value=""/>
        <configuration_item name="database" value=""/>
        <configuration_item name="host" value=""/>
        <configuration_item name="username" value=""/>
      </configuration_items>
      <typeParameters/>
    </node>
    <node id="2" name="" type="Conveyor.MGX.GetSequences" x="21" y="188">
      <configuration_items/>
      <typeParameters/>
    </node>
    <node id="3" name="" type="Conveyor.MGX.GetMGXReference" x="521" y="48">
      <configuration_items>
        <configuration_item name="refId" user_name="reference" user_description="reference sequence to map reads against"/>
      </configuration_items>
      <typeParameters/>
    </node>
    <node id="4" name="" type="Conveyor.MGX.CreateMapping" x="503" y="367">
      <configuration_items/>
      <typeParameters/>
    </node>
    <node id="6" name="" type="Conveyor.List.Iterator`1" x="223" y="321">
      <configuration_items/>
      <typeParameters>
        <type name="Conveyor.Minimap2.Minimap2MappedRead`2">
          <type name="Conveyor.MGX.MGXSequence"/>
          <type name="Conveyor.MGX.MGXReference"/>
        </type>
      </typeParameters>
    </node>
    <node id="9" name="" type="Conveyor.Minimap2.CreateMinimap2Index`1" x="411" y="167">
      <configuration_items/>
      <typeParameters>
        <type name="Conveyor.MGX.MGXReference"/>
      </typeParameters>
    </node>
    <node id="10" name="" type="Conveyor.Minimap2.Minimap2`2" x="227" y="165">
      <configuration_items>
        <configuration_item name="chunkSize" value="200000"/>
        <configuration_item name="seqdataType" user_description="type of sequence data" user_name="data type" value="PACBIO"/>
      </configuration_items>
      <typeParameters>
        <type name="Conveyor.MGX.MGXSequence"/>
        <type name="Conveyor.MGX.MGXReference"/>
      </typeParameters>
    </node>
  </nodes>
  <links>
    <link from_connector="output" from_node="1" to_connector="input" to_node="2"/>
    <link from_connector="output" from_node="1" to_connector="input" to_node="3"/>
    <link from_connector="output" from_node="3" to_connector="referenceIn" to_node="4"/>
    <link from_connector="output" from_node="6" to_connector="mappingIn" to_node="4"/>
    <link from_connector="mappings" from_node="10" to_connector="input" to_node="6"/>
    <link from_connector="output" from_node="3" to_connector="sequence" to_node="9"/>
    <link from_connector="sequenceOut" from_node="2" to_connector="read" to_node="10"/>
    <link from_connector="index" from_node="9" to_connector="references" to_node="10"/>
  </links>
</graph>