Repository revision
1:f6f246438eda

Repository 'deeptools_bigwig_average'
hg clone https://toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average

bigwigAverage tool metadata
Miscellaneous
normalizes and average multiple bigWig files
deeptools_bigwig_average
toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.2+galaxy0
3.5.2+galaxy0
bigwigAverage --version
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.4+galaxy0
toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.2+galaxy0 (this tool)
toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.1.0+galaxy0
deeptools_bigwig_average
Requirements (dependencies defined in the <requirements> tag set)
name version type
deeptools 3.5.2 package
samtools 1.9 package
Additional information about this tool
bigwigAverage
            --numberOfProcessors "\${GALAXY_SLOTS:-4}"
            --bigwigs
            #for $b in $bigwigs:
                $b
            #end for
            --outFileName '$outFileName'
            --outFileFormat '$outFileFormat'

            #if str($region).strip() != '':
                --region '$region'
            #end if

            #if $advancedOpt.showAdvancedOpt == "yes":

              $advancedOpt.skipNAs
              --scaleFactors '$advancedOpt.scaleFactors'
              --binSize $advancedOpt.binSize

                

        #if ' '.join( map(str, $advancedOpt.blackListFileName) ) != 'None':
            #set blfiles=[]
            #for $f in $advancedOpt.blackListFileName:
                #silent $blfiles.append("'%s'" % $f)
            #end for
            #if $blfiles != ["'None'"]:
                --blackListFileName #echo ' '.join($blfiles)#
            #end if
        #end if

    

            #end if

    
None
False
Functional tests
name inputs outputs required files
Test-1 bigwigs: test.bw
outFileFormat: bigwig
advancedOpt|binSize: 5
advancedOpt|showAdvancedOpt: yes
name: value
test.bw
value
Test-2 bigwigs: test.bw
outFileFormat: bigwig
advancedOpt|binSize: 5
advancedOpt|scaleFactors: 0.5
advancedOpt|showAdvancedOpt: yes
name: value
test.bw
value
Test-3 bigwigs: ['test.bw', 'test_half.bw']
outFileFormat: bigwig
advancedOpt|binSize: 5
advancedOpt|scaleFactors: 0.5
advancedOpt|showAdvancedOpt: yes
name: value
test.bw
test_half.bw
value
Test-4 bigwigs: ['test.bw', 'test_half.bw']
outFileFormat: bigwig
advancedOpt|binSize: 5
advancedOpt|scaleFactors: 1:2
advancedOpt|showAdvancedOpt: yes
name: value
test.bw
test_half.bw
value