[BEDTools] Add new commands

[verdurin]

commit ac03d58384dffa781c5f8b247c36676cbeffbb96
Author: Adam Huffman <bloch at verdurin.com>
Date:   Wed Jan 4 17:14:20 2012 +0000

    Add new commands

 BEDTools.spec |    8 ++++++++
 1 files changed, 8 insertions(+), 0 deletions(-)
---
diff --git a/BEDTools.spec b/BEDTools.spec
index a448e4f..20f9884 100644
--- a/BEDTools.spec
+++ b/BEDTools.spec
@@ -76,10 +76,12 @@ rm -rf %{buildroot}
 %{_bindir}/annotateBed
 %{_bindir}/bamToBed
 %{_bindir}/bed12ToBed6
+%{_bindir}/bedpeToBam
 %{_bindir}/bedToBam
 %{_bindir}/bedToIgv
 %{_bindir}/bedtools
 %{_bindir}/closestBed
+%{_bindir}/clusterBed
 %{_bindir}/complementBed
 %{_bindir}/coverageBed
 #%{_bindir}/cuffToTrans
@@ -87,11 +89,14 @@ rm -rf %{buildroot}
 #%{_bindir}/fjoin
 %{_bindir}/flankBed
 %{_bindir}/genomeCoverageBed
+%{_bindir}/getOverlap
+%{_bindir}/groupBy
 %{_bindir}/intersectBed
 %{_bindir}/linksBed
 %{_bindir}/maskFastaFromBed
 %{_bindir}/mergeBed
 %{_bindir}/multiBamCov
+%{_bindir}/multiIntersectBed
 %{_bindir}/nucBed
 %{_bindir}/pairToBed
 %{_bindir}/pairToPair
@@ -102,6 +107,7 @@ rm -rf %{buildroot}
 %{_bindir}/tagBam
 %{_bindir}/unionBedGraphs
 %{_bindir}/windowBed
+%{_bindir}/windowMaker
 
 %{_datadir}/%{name}/genomes
 %{_datadir}/%{name}/data
@@ -116,6 +122,8 @@ rm -rf %{buildroot}
 - new unified command line interface 'bedtools'
 - add python BR for new Makefile target to generate legacy commands
 - remove 'overlap'
+- add 'bedpeToBam', 'clusterBed', 'getOverlap', 'groupBy'
+- add 'multiIntersectBed', 'windowMaker'
 
 * Fri Oct 28 2011 Adam Huffman <bloch at verdurin.com> - 2.13.4-1
 - new upstream minor bugfix release, see http://code.google.com/p/bedtools/