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Description: Create upstream changelog (extracted from README)
Author: Thorsten Alteholz <debian@alteholz.de>
Last-Update: 2011-06-03
Index: dotur-1.53/changelog
===================================================================
--- /dev/null 1970-01-01 00:00:00.000000000 +0000
+++ dotur-1.53/changelog 2011-06-03 12:55:46.000000000 +0200
@@ -0,0 +1,45 @@
+Version 1.0
+ Released May 25, 2004
+Version 1.1
+ Released July 19, 2004
+ Fixed bug in shannon index files
+ expanded number of values to the right of the decimal point from 2 to 4
+Version 1.2
+ Released August 23, 2004
+ Fixed bug in calculating variance of shannon index
+ Give user the flexibility to set the number of iterations to run
+ Reverted to presenting the mean instead of 50%tile for rarefaction curve
+ Fixed a small bug that had rarefaction curves going through (1,0) instead of (1,1)
+ Changed *.r_rarefaction filename to *.rarefaction
+ Changed *.r_*.ltt to *.ltt filenames (eg. *r_chao.ltt is now *.chao.ltt)
+ Wrote first version of user manual
+Version 1.3
+ Released March 3, 2005
+ Final release before publication of paper in March 2005 issue of AEM
+ Fixed libraries dependency error that caused compilation problems on some platforms
+ Fixed core dump error received by some users
+ Fixed bugs in reporting Shannon & Simpson Indices
+ Changed number of places to report right of the decimal point for output files
+ Streamlined terminal output
+ Added user control of whether to calculate rarefaction curve for ecological parameters
+ (still calcuates traditional rarefaction curve) - makes execution much faster
+ Fixed some problems and updated parts of user manual
+Version 1.4
+ Released March 8, 2005
+ Fixed bug in calculating the confidence interval for the Chao1 estimator
+Version 1.5
+ Released April 19, 2005
+ Added 95% CI for ACE richness estimator
+ Updated bias-corrected Chao1 richness estimator and standard error formulae according to Colwell and Chao
+ Allow user to set largest distance to consider (-stop)
+ Allow user to construct a rarefaction curve obtained by sampling with replacement (-wrep)
+ Fixed a problem in constructing collector's curves caused by sequence names that are a fragment of another name
+Version 1.51
+ Released April 22, 2005
+ Support mega3 formatted distance files as input
+Version 1.53
+ Released November XX, 2005
+ Allow user to "jumble" the order of sequences in the distance matrix (use -jumble)
+ Allow the user to input a similarity matrix, although correction is still recommended (use -sim)
+ Modified data types in otu.h making the clustering procedure use less memory and faster
+ DOTUR now produces a file containing data to construct rank-abundance plots
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