<?xml version="1.0" ?>
<ccp4:ccp4i2 xmlns:ccp4="http://www.ccp4.ac.uk/ccp4ns">
    <ccp4i2_header>
        <function>DEF</function>
        <comment></comment>
        <projectName></projectName>
        <userId>martin</userId>
        <ccp4iVersion>0.0.1</ccp4iVersion>
        <jobId></jobId>
        <pluginName>phaser_pipeline</pluginName>
        <pluginVersion></pluginVersion>
        <projectId></projectId>
        <creationTime>09:40 23/Dec/12</creationTime>
        <pluginTitle></pluginTitle>
        <jobNumber></jobNumber>
    </ccp4i2_header>
    <ccp4i2_body id="phaser_pipeline">
        <file>
            <CI2XmlDataFile>
                <project>CCP4I2_TOP</project>
                <relPath>pipelines/phaser_pipeline/wrappers/phaser_MR_AUTO/script</relPath>
                <baseName>phaser_MR_AUTO.def.xml</baseName>
            </CI2XmlDataFile>
        </file>
        <container id="inputData">
            <content id="FREERFLAG">
                <className>CFreeRDataFile</className>
                <qualifiers>
                    <mustExist>True</mustExist>
                    <allowUndefined>True</allowUndefined>
                    <fromPreviousJob>True</fromPreviousJob>
                    <sameCrystalAs>F_SIGF</sameCrystalAs>
                </qualifiers>
            </content>
            <content id="RUNREFMAC">
                <className>CBoolean</className>
                <qualifiers>
                    <default>True</default>
                    <guiLabel>Tick if simple REFMAC should be run after phaser</guiLabel>
                </qualifiers>
            </content>
            <content id="RUNCOOT">
                <className>CBoolean</className>
                <qualifiers>
                    <default>False</default>
                    <guiLabel>Tick if COOT should fill-and-fit partial residues</guiLabel>
                </qualifiers>
            </content>
            <content id="XYZIN_TARGET">
                <className>CPdbDataFile</className>
                <qualifiers>
                    <mustExist>True</mustExist>
                    <allowUndefined>True</allowUndefined>
                    <fromPreviousJob>False</fromPreviousJob>
                    <ifAtomSelection>False</ifAtomSelection>
                    <guiLabel>Reference structure</guiLabel>
                </qualifiers>
            </content>
        </container>
        <container id="outputData">
            <content id="F_SIGF_OUT">
                <className>CObsDataFile</className>
                <qualifiers/>
            </content>
            <content id="FREERFLAG_OUT">
                <className>CFreeRDataFile</className>
                <qualifiers/>
            </content>
            <content id="XYZOUT_COOT">
                <className>CPdbDataFile</className>
                <qualifiers/>
            </content>
            <content id="XYZOUT_CSYMMATCH">
                <className>CPdbDataFile</className>
                <qualifiers/>
            </content>
            <content id="XYZOUT_REFMAC">
                <className>CPdbDataFile</className>
                <qualifiers/>
            </content>
            <content id="DIFMAPOUT_REFMAC">
                <className>CMapCoeffsDataFile</className>
                <qualifiers>
                    <default>
                        <contentFlag>1</contentFlag>
                        <subType>2</subType>
                    </default>
                    <saveToDb>True</saveToDb>
                </qualifiers>
            </content>
            <content id="MAPOUT_REFMAC">
                <className>CMapCoeffsDataFile</className>
                <qualifiers>
                    <default>
                        <contentFlag>1</contentFlag>
                        <subType>1</subType>
                    </default>
                    <saveToDb>True</saveToDb>
                </qualifiers>
            </content>
            <content id="PERFORMANCEINDICATOR">
                <className>CRefinementPerformance</className>
            </content>
        </container>
    </ccp4i2_body>
</ccp4:ccp4i2>

    
