comparison hicPlotDistVsCounts.xml @ 12:34dc1acfcc62 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3b41d687ff30583540d055f6995de00530cca81d-dirty"

11:b41ccd496b49

        #import re
        #set matrices_path=[]
        #set matrices_labels=[]
        #for $counter, $m, in enumerate($matrices):
            #set identifier = re.sub('[^\s\w\-]', '_', str($m.element_identifier))
            ln -f -s '${m}' '${identifier}_${counter}' &&
            #silent $matrices_path.append("'%s_%s'" % ($identifier, $counter))
            #silent $matrices_labels.append("'%s'" % ($identifier))
        #end for

        @BINARY@
            --matrices #echo " ".join($matrices_path)#

            <filter>outFileData_Boolean</filter>
        </data>
    </outputs>
    <tests>
        <test>
            <param name="matrices" ftype="h5" value="small_test_matrix_50kb_res.h5"/>
            <param name="skipDiagonal" value="False"/>
            <output name="plotFile" file="hicPlotDistVsCounts_result1.png" ftype="png" compare="sim_size"/>
        </test>
        <test>
            <param name="matrices" ftype="h5" value="small_test_matrix_50kb_res.h5"/>
            <param name="skipDiagonal" value="False"/>
            <param name='outFileData_Boolean' value='True'/>
            <output name="plotFile" file="hicPlotDistVsCounts_result1.png" ftype="png" compare="sim_size"/>
            <output name="outFileData" file="distVsCounts.txt" ftype="txt" compare="sim_size" delta='600'/>
        </test>
        <test>
            <param name="matrices" ftype="h5" value="small_test_matrix_50kb_res.h5,small_test_matrix_50kb_res.h5"/>
            <param name="skipDiagonal" value="False"/>
            <param name="perchr" value="True" />
            <repeat name="chromosomeExclude">
                <param name="chromosomeExclude" value="chrUextra"/>
            </repeat>

12:34dc1acfcc62

        #import re
        #set matrices_path=[]
        #set matrices_labels=[]
        #for $counter, $m, in enumerate($matrices):
            #set identifier = re.sub('[^\s\w\-]', '_', str($m.element_identifier))
            ln -f -s '${m}' '${identifier}_${counter}.$m.ext' &&
            #silent $matrices_path.append("'%s_%s.%s'" % ($identifier, $counter, $m.ext))
            #silent $matrices_labels.append("'%s'" % ($identifier))
        #end for

        @BINARY@
            --matrices #echo " ".join($matrices_path)#

            <filter>outFileData_Boolean</filter>
        </data>
    </outputs>
    <tests>
        <test>
            <param name="matrices" ftype="h5" value="small_test_matrix.h5"/>
            <param name="skipDiagonal" value="False"/>
            <output name="plotFile" file="hicPlotDistVsCounts_result1.png" ftype="png" compare="sim_size"/>
        </test>
        <test>
            <param name="matrices" ftype="h5" value="small_test_matrix.h5"/>
            <param name="skipDiagonal" value="False"/>
            <param name='outFileData_Boolean' value='True'/>
            <output name="plotFile" file="hicPlotDistVsCounts_result1.png" ftype="png" compare="sim_size"/>
            <output name="outFileData" file="distVsCounts.txt" ftype="txt" compare="sim_size" delta='600'/>
        </test>
        <test>
            <param name="matrices" ftype="h5" value="small_test_matrix.h5,small_test_matrix.h5"/>
            <param name="skipDiagonal" value="False"/>
            <param name="perchr" value="True" />
            <repeat name="chromosomeExclude">
                <param name="chromosomeExclude" value="chrUextra"/>
            </repeat>