| Previous changeset 12:7b3aaff0d78c (2016-10-28) Next changeset 14:304a594a7ef6 (2017-05-14) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 391d2d41095edb2badf70924d3636238453ee377 |
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modified:
intersectBed.xml macros.xml reldist.xml windowBed.xml |
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| diff -r 7b3aaff0d78c -r fadebae7e69b intersectBed.xml --- a/intersectBed.xml Fri Oct 28 12:54:40 2016 -0400 +++ b/intersectBed.xml Mon Jan 23 06:43:06 2017 -0500 |
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| @@ -11,7 +11,7 @@ #set modes = ' '.join( str($overlap_mode).split(',') ) bedtools intersect - #if $inputA.ext == "bam": + #if $inputA.is_of_type('bam'): -abam "${inputA}" #else: -a "${inputA}" |
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| diff -r 7b3aaff0d78c -r fadebae7e69b macros.xml --- a/macros.xml Fri Oct 28 12:54:40 2016 -0400 +++ b/macros.xml Mon Jan 23 06:43:06 2017 -0500 |
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| @@ -161,7 +161,7 @@ This tool is part of the `bedtools package`_ from the `Quinlan laboratory`_. .. _bedtools package: https://github.com/arq5x/bedtools2 -.. _Quinlan laboratory: http://cphg.virginia.edu/quinlan/ +.. _Quinlan laboratory: http://quinlanlab.org **Citation** |
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| diff -r 7b3aaff0d78c -r fadebae7e69b reldist.xml --- a/reldist.xml Fri Oct 28 12:54:40 2016 -0400 +++ b/reldist.xml Mon Jan 23 06:43:06 2017 -0500 |
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| @@ -8,10 +8,10 @@ <command> <![CDATA[ bedtools reldist - -a $inputA - -b $inputB + -a '$inputA' + -b '$inputB' $detail - > "$output" + > '$output' ]]> </command> <inputs> |
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| diff -r 7b3aaff0d78c -r fadebae7e69b windowBed.xml --- a/windowBed.xml Fri Oct 28 12:54:40 2016 -0400 +++ b/windowBed.xml Mon Jan 23 06:43:06 2017 -0500 |
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| @@ -8,7 +8,7 @@ <command> <![CDATA[ bedtools window - #if $inputA.ext == "bam": + #if $inputA.is_of_type('bam'): -abam '$inputA' #else: -a '$inputA' |