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## Change Log for package rbamtools
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30.Okt.12	[initialize.gapList] Made printout message optional (verbose)

31.Okt.12	[bamRange] Included test for initialized index

31.Okt.12	Check for open reader in getHeader, getHeaderText, getRefCount

01.Nov.12	[get_const_next_align] added to correct memory leak.

08.Nov.12	Reading and writing big bamRanges (pure C, no R) valgrind checked.

09.Nov.12	[bamCopy.bamReader] Added which allows refwise copying.

31.Dec.12	gapSiteList class added

11.Jan.13	bamGapList class added

06.Feb.13	First successful test of bamGapList on 36 BAM-files (871.926 aligns/sec)

20.Feb.13	Fixed Error in merge.bamGapList

27.Feb.13	Renamed createIndex -> create.index and loadIndex
		-> load.index and bamSiteList -> bamGapList

18.Apr.13	Corrected some memory leaks in C-Code as reported by Brian Ripley

22.Apr.13	Added (read-) name and revstrand to as.data.frame.bamRange (as proposed by Ander Muniategui)

11.Jun.13	Added reader2fastq and range2fastq functions (2.5.3, valgrind tested)

11.Jun.13	Changed signature for bamSave: added refid argument
		(needed to prevent samtools crashes when creating BAM files
		with single align regions and appropriate refSeqDict entries)
		(2.5.4, valgrind tested)

12.Jun.13	Added extractRanges function (2.5.5)

21.Jun.13	Added bamAlign function (2.5.6)

01.Jul.13	Added bamCount function (2.5.8)

02.Jul.13	Added bamCountAll function, valgrind tested (2.5.9)

18.Jul.13	Changed 'nGapAligns' to 'nAlignGaps (2.5.10) nGapAligns deprecated!

24.JUl.13	Added alignQual function, valgrind tested (2.5.11)

28.Jul.13	Added alignDepth function, valgrind tested (2.5.12)

13.Aug.13	Added countTextLines function, valgrind tested (2.6.1)

26.Aug.13	Removed "coerce" from Namespace declaration

02.Sep.13	Changed "cat" to "message"

10.Jun.14	On CRAN after correction of "Mis-alignment errors"

19.Jun.14	Re-introduction of changes after resetting to 2.7.0 due to internal errors

21.Jul.14	Updated plotAlignDepth: Option for plotting of exon positions added

14.Jul.14	Added test directory

28.Jul.14	Added NEWS and ChangeLog file

