comparison hexrd_fit_grains.xml @ 10:a35bda7ed678 draft default tip

"planemo upload for repository https://github.com/ximg-chess/galaxytools/tree/master/tools/hexrd commit 082120888ad38a8e84b32834c698c374db6f0b0c-dirty"

9:e67ad9795525

        <collection name="spots" type="list" label="${tool.name} on ${on_string}:spots">
            <discover_datasets pattern="(?P&lt;designation&gt;.+_spots.+\.out)" ext="tabular" directory="analysis"/>
        </collection>
    </outputs>
    <tests>
        <test>
            <param name="inputs" ftype="hexrd.iamges.npz" value="RUBY_0000-fc_GE.npz,RUBY_0001-fc_GE.npz,RUBY_0002-fc_GE.npz,RUBY_0003-fc_GE.npz,RUBY_0004-fc_GE.npz,RUBY_0005-fc_GE.npz"/>
            <conditional name="detector">
                <param name="panel_assignment" value="infer_from_name"/>
            </conditional>
            <param name="instrument" ftype="yaml" value="ge_detector.yml"/>
            <param name="material" ftype="hexrd.materials.h5" value="materials.h5"/>
            <param name="active_material" value="ruby"/>
            <param name="ome_map" ftype="hexrd.eta_ome.npz" value="analysis_ruby_eta-ome_maps.npz"/>
            <param name="accepted_orientations" ftype="tabular" value="accepted_orientations_analysis_ruby.dat"/>
            <param name="grains_estimate" ftype="tabular" value="grains.out"/>
            <param name="do_fit" value="true"/>
            <param name="npdiv" value="2"/>
            <param name="threshold" value="25"/>
            <section name="tolerance">
                <repeat name="tolerance_lists">
                    <param name="tth" value="0.25"/>
                    <param name="eta" value="3.0"/>
                    <param name="omega" value="2.0"/>
                    <param name="refit" value="1"/>
                </repeat>
                <repeat name="tolerance_lists">
                    <param name="tth" value="0.20"/>
                    <param name="eta" value="2.0"/>
                    <param name="omega" value="1.0"/>
                    <param name="refit" value="1"/>
                </repeat>
                <param name="tth_max" value="14.25"/>
            </section>
            <output name="grains">
                <assert_contents>
                    <has_text text="6.6655" />
                </assert_contents>
            </output>
        </test>
    </tests>
    <help><![CDATA[

10:a35bda7ed678

        <collection name="spots" type="list" label="${tool.name} on ${on_string}:spots">
            <discover_datasets pattern="(?P&lt;designation&gt;.+_spots.+\.out)" ext="tabular" directory="analysis"/>
        </collection>
    </outputs>
    <tests>
        <!-- Test-1 single_GE -->
        <test>
            <param name="analysis_name" value="ruby"/>
            <param name="inputs" ftype="hexrd.images.npz" value="single_GE/RUBY_0000-fc_GE.npz,single_GE/RUBY_0001-fc_GE.npz,single_GE/RUBY_0002-fc_GE.npz,single_GE/RUBY_0003-fc_GE.npz,single_GE/RUBY_0004-fc_GE.npz,single_GE/RUBY_0005-fc_GE.npz"/>
            <conditional name="detector">
                <param name="panel_assignment" value="infer_from_name"/>
            </conditional>
            <param name="instrument" ftype="hexrd.yml" value="single_GE/ge_detector.yml"/>
            <param name="material" ftype="hexrd.materials.h5" value="single_GE/materials.h5"/>
            <param name="active_material" value="ruby"/>
            <param name="dmin" value="0.7"/>
            <param name="tth_width" value="0.2"/>
            <param name="min_sfac_ratio" value="0.05"/>
            <param name="ome_map" ftype="hexrd.eta_ome.npz" value="single_GE/analysis_ruby_eta-ome_maps.npz"/>
            <param name="accepted_orientations" ftype="hexrd.accepted_orientations" value="single_GE/accepted_orientations_analysis_ruby.dat"/>
            <param name="grains_estimate" ftype="tabular" value="single_GE/grains_estimate.out"/>
            <param name="do_fit" value="true"/>
            <param name="npdiv" value="2"/>
            <param name="threshold" value="25"/>
            <section name="tolerance">
                <repeat name="tolerance_lists">
                    <param name="tth" value="0.25"/>
                    <param name="eta" value="3.0"/>
                    <param name="omega" value="2.0"/>
                </repeat>
                <repeat name="tolerance_lists">
                    <param name="tth" value="0.20"/>
                    <param name="eta" value="2.0"/>
                    <param name="omega" value="1.0"/>
                </repeat>
                <param name="refit" value="1,1"/>
                <param name="tth_max" value="14.25"/>
            </section>
            <output name="grains">
                <assert_contents>
                    <has_text text="6.69" />
                </assert_contents>
            </output>
        </test>
        <!-- Test-2 multiruby_dexelas -->
        <test>
            <param name="analysis_name" value="ruby"/>
            <param name="inputs" ftype="hexrd.images.npz" value="multiruby_dexelas/mruby-0129_000004_ff1_000012-cachefile.npz,multiruby_dexelas/mruby-0129_000004_ff2_000012-cachefile.npz"/>
            <conditional name="detector">
                <param name="panel_assignment" value="infer_from_name"/>
            </conditional>
            <param name="instrument" ftype="hexrd.yml" value="multiruby_dexelas/dexelas_id3a_20200130.yml"/>
            <param name="material" ftype="hexrd.materials.h5" value="multiruby_dexelas/materials.h5"/>
            <param name="active_material" value="ruby"/>
            <param name="dmin" value="0.7"/>
            <param name="tth_width" value="0.2"/>
            <param name="min_sfac_ratio" value="0.05"/>
            <param name="ome_map" ftype="hexrd.eta_ome.npz" value="multiruby_dexelas/mruby_monolithic_eta-ome_maps.npz"/>
            <param name="accepted_orientations" ftype="hexrd.accepted_orientations" value="multiruby_dexelas/accepted_orientations_analysis_ruby.dat"/>
            <param name="grains_estimate" ftype="tabular" value="multiruby_dexelas/grains_estimate.out"/>
            <param name="do_fit" value="true"/>
            <param name="npdiv" value="4"/>
            <param name="threshold" value="25"/>
            <section name="tolerance">
                <repeat name="tolerance_lists">
                    <param name="tth" value="0.25"/>
                    <param name="eta" value="3.0"/>
                    <param name="omega" value="2.0"/>
                </repeat>
                <repeat name="tolerance_lists">
                    <param name="tth" value="0.20"/>
                    <param name="eta" value="2.0"/>
                    <param name="omega" value="1.0"/>
                </repeat>
                <param name="refit" value="3,1"/>
                <param name="tth_max" value="true"/>
            </section>
            <output name="grains">
                <assert_contents>
                    <has_text text="0.98" />
                </assert_contents>
            </output>
        </test>
    </tests>
    <help><![CDATA[