File: ChangeLog

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r-cran-ade4 1.7-5-1
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2016-12-13  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* DESCRIPTION: ---------- release of ade4 1.7-5 ----------

2016-12-13  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* README.md: Add badge

2016-11-28  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* man/PI2newick.Rd, man/ade4.package.Rd, man/adegraphicsLoaded.Rd,
	man/aminoacyl.Rd, man/apqe.Rd, man/ardeche.Rd, man/as.taxo.Rd,
	man/atlas.Rd, man/atya.Rd, man/avijons.Rd, man/aviurba.Rd,
	man/banque.Rd, man/baran95.Rd, man/bca.rlq.Rd, man/between.Rd,
	man/betweencoinertia.Rd, man/buech.Rd, man/bwca.dpcoa.Rd,
	man/cailliez.Rd, man/carni70.Rd, man/carniherbi49.Rd,
	man/casitas.Rd, man/cca.Rd, man/chatcat.Rd, man/chats.Rd,
	man/clementines.Rd, man/coinertia.Rd, man/combine.4thcorner.Rd,
	man/corkdist.Rd, man/costatis.Rd, man/costatis.randtest.Rd,
	man/discrimin.Rd, man/discrimin.coa.Rd, man/dist.binary.Rd,
	man/dist.dudi.Rd, man/dist.genet.Rd, man/dist.ktab.Rd,
	man/dist.neig.Rd, man/dist.prop.Rd, man/dist.quant.Rd,
	man/divcmax.Rd, man/dotchart.phylog.Rd, man/doubs.Rd, man/dpcoa.Rd,
	man/dudi.Rd, man/dudi.acm.Rd, man/dudi.coa.Rd, man/dudi.dec.Rd,
	man/dudi.fca.Rd, man/dudi.hillsmith.Rd, man/dudi.mix.Rd,
	man/dudi.nsc.Rd, man/dudi.pca.Rd, man/dudi.pco.Rd, man/escopage.Rd,
	man/euro123.Rd, man/foucart.Rd, man/fourthcorner.Rd, man/fruits.Rd,
	man/gearymoran.Rd, man/granulo.Rd, man/gridrowcol.Rd,
	man/ichtyo.Rd, man/inertia.dudi.Rd, man/is.euclid.Rd,
	man/julliot.Rd, man/jv73.Rd, man/kdist.Rd, man/kdist2ktab.Rd,
	man/kdisteuclid.Rd, man/krandtest.Rd, man/ktab.Rd,
	man/ktab.data.frame.Rd, man/ktab.list.df.Rd, man/ktab.list.dudi.Rd,
	man/ktab.match2ktabs.Rd, man/ktab.within.Rd, man/lascaux.Rd,
	man/lingoes.Rd, man/macon.Rd, man/macroloire.Rd,
	man/mantel.rtest.Rd, man/mariages.Rd, man/mbpcaiv.Rd, man/mbpls.Rd,
	man/mcoa.Rd, man/mdpcoa.Rd, man/meau.Rd, man/meaudret.Rd,
	man/mfa.Rd, man/microsatt.Rd, man/mjrochet.Rd, man/mld.Rd,
	man/mollusc.Rd, man/monde84.Rd, man/morphosport.Rd,
	man/multiblock.Rd, man/multispati.randtest.Rd,
	man/multispati.rtest.Rd, man/newick.eg.Rd, man/newick2phylog.Rd,
	man/niche.Rd, man/nipals.Rd, man/njplot.Rd, man/originality.Rd,
	man/orthobasis.Rd, man/orthogram.Rd, man/ours.Rd, man/palm.Rd,
	man/pcaiv.Rd, man/pcaivortho.Rd, man/phylog.Rd,
	man/plot.between.Rd, man/plot.phylog.Rd, man/plot.within.Rd,
	man/procuste.Rd, man/procuste.rtest.Rd, man/pta.Rd,
	man/quasieuclid.Rd, man/randboot.multiblock.Rd,
	man/randtest.coinertia.Rd, man/randtest.pcaiv.Rd, man/reconst.Rd,
	man/rhone.Rd, man/rlq.Rd, man/rpjdl.Rd, man/s.match.class.Rd,
	man/sarcelles.Rd, man/scalewt.Rd, man/scatter.Rd,
	man/scatter.fca.Rd, man/scatterutil.Rd, man/sco.class.Rd,
	man/sco.gauss.Rd, man/sco.label.Rd, man/sco.match.Rd,
	man/statico.Rd, man/statico.krandtest.Rd, man/steppe.Rd,
	man/supcol.Rd, man/suprow.Rd, man/symbols.phylog.Rd,
	man/syndicats.Rd, man/t3012.Rd, man/table.phylog.Rd,
	man/tarentaise.Rd, man/testdim.Rd, man/testdim.multiblock.Rd,
	man/trichometeo.Rd, man/ungulates.Rd, man/variance.phylog.Rd,
	man/veuvage.Rd, man/wca.rlq.Rd, man/westafrica.Rd, man/within.Rd,
	man/withincoinertia.Rd, man/withinpca.Rd, man/witwit.coa.Rd,
	man/woangers.Rd, man/worksurv.Rd, src/adesub.c: Correct encoding of
	Rd files

2016-11-25  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* man/gearymoran.Rd, man/mafragh.Rd, man/multispati.Rd,
	man/multispati.randtest.Rd, man/multispati.rtest.Rd: Update and
	clean 'mafragh' data

2016-11-21  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : Merge pull request #4 from zkamvar/zkamvar-patch-1 Fix bug in randtest.amova

2016-11-20  Zhian N. Kamvar <kamvarz@science.oregonstate.edu>

	* R/randtest.amova.R: fix bug in randtest.amova This bug came up in
	https://groups.google.com/forum/#!topic/poppr/D1gpqgQM2F0 There is no issue when comparing three hierarchical levels, but when
	there are four or more, the alternate hypothesis for every fourth
	level is incorrect due to the recycling of c("less", "greater",
	"greater").

2016-10-18  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/nipals.R: Correct a small bug identified by Denis Clot in the
	rescaling of sd

2016-09-27  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/orthobasis.R: Correct a minor bug in the print method of
	orthobasis objects

2016-09-12  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* README.md: Update homepage

2016-07-22  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* man/dist.ktab.Rd: Update the doc to indicate that ordered
	variables are not yet considered.

2016-06-10  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : commit 7a4a263d8ac2822ee89f1cf167e4e118c03b4023 Author:
	Stéphane Dray <stephane.dray@univ-lyon1.fr> Date:   Fri Jun 10
	15:50:04 2016 +0200

2016-05-20  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* .Rbuildignore, man/pcw.Rd: Update Rbuildignore

2016-05-13  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/scatterutil.R: Correct a bug when covariance is null (ellipses
	were reversed)

2016-05-13  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/dudi.pco.R: Correct a bug in the scaling of normed components
	with non-uniform weights

2016-05-02  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* NAMESPACE, R/inertia.dudi.R, man/inertia.dudi.Rd: The function
	'inertia.dudi' now becomes a method. It returns object of class
	'inertia' with 'print' and 'summary' methods

2016-03-21  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* man/elec88.Rd: Update the doc and add informations on nb, Spatial
	and Spatialcontour

2016-03-04  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* NAMESPACE, R/suprow.R, man/suprow.Rd: New methods suprow.acm,
	suprow.mix and predict.dudi

2016-03-04  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/dudi.hillsmith.R: Function dudi.hillsmith now returns vectors
	center and norm (useful for the suprow.mix function)

2016-03-01  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* : DESCRIPTION: ---------- release of ade4 1.7-4 ----------

2016-02-24  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : Merge pull request #3 from Rekyt/patch-1 Correct Reference with DOI

2016-02-22  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* .gitignore: Add a configure file to ignore some files in the Git
	repository

2016-02-21  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : commit 93fe29b91eb21adeb4f08e07b432b3b61d54e07a Author:
	Stéphane Dray <stephane.dray@univ-lyon1.fr> Date:   Sun Feb 21
	14:33:14 2016 +0100

2016-01-22  Jean Thioulouse <jean.thioulouse@univ-lyon1.fr>

	* R/mfa.R: print.mfa print mfa object class

2015-12-16  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : commit e983689cedf4c297aae70ee4dcce8cecca1a6b54 Author:
	Stéphane Dray <stephane.dray@univ-lyon1.fr> Date:   Wed Dec 16
	10:45:46 2015 +0100

2015-11-26  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* README.md: Add references to the binary packages

2015-11-24  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/dpcoa.R: Update the plot function to represent species (and
	sites or their diversity according to RaoDecomp argument)

2015-11-24  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/dpcoa.R: Correct a small bug in the handling of species names

2015-11-24  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : commit 4691e39258ac4c2f743d97f94cbc2b6d94d53ec1 Author:
	Stéphane Dray <stephane.dray@univ-lyon1.fr> Date:   Tue Nov 24
	13:58:43 2015 +0100

2015-11-24  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/randtest.dpcoa.R, man/randtest.dpcoa.Rd: Add new function
	randtest.dpcoa

2015-11-10  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* DESCRIPTION: Add BugReports field

2015-11-10  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* ChangeLog: ---------- release of ade4 1.7-3 ----------

2015-11-10  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : commit 13ff73165e429972dbfaa2d44f8eaef4ca826324 Author:
	Stéphane Dray <stephane.dray@univ-lyon1.fr> Date:   Tue Nov 10
	10:04:42 2015 +0100
	
2015-11-10  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* DESCRIPTION: ---------- release of ade4 1.7-3 ----------

2015-10-19  Jean Thioulouse <jean.thioulouse@univ-lyon1.fr>

	* R/ktab.R: Change ktab.util.names to allow for ktabs with varying
	numbers of rows (columns)

2015-10-14  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* DESCRIPTION: Suggest the 'CircStats' package which is used in Rd
	cross-references

2015-09-21  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/randtest-internal.R, R/randtest.discrimin.R,
	src/fourthcorner.c, src/tests.c: Remove some unused variables in C
	code

2015-09-18  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* README.md: Add badges and informations for Mac and Windows users

2015-09-18  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* .travis.yml: Change setting for travis(error was produced due to
	unchanged dates and version numbers)

2015-09-18  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* .Rbuildignore, appveyor.yml: Add windows check (via appveyor)

2015-09-18  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/mbpcaiv.R, R/mbpls.R, R/multiblock.R: Udate multiblock methods
	to deal with non-centred data

2015-09-18  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* .Rbuildignore: Add README.md to .Rbuildignore

2015-09-15  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/scalewt.R, man/scalewt.Rd: Correct a bug to allow scaling
	without centring

2015-09-09  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : Reorder the levels of season (spring as first)

2015-09-09  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/randtest.rlq.R: Correct a bug to deal with a single trait and/or
	environmental variable (email by C. ter Braak 28/08/2015)

2015-09-09  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* .Rbuildignore, .travis.yml, README.md: Add travis support and
	README

2015-08-27  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* R/dudi.R: Use make.unique instead of make.names to produce
	row.names for outputs. The second is devoted to names (e.g., by
	avoiding integer which are authorized as row.names)

2015-08-26  Jean Thioulouse <jean.thioulouse@univ-lyon1.fr>

	* R/pta.R: Modify the levels names of supTI

2015-07-15  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* : Reorder the levels of the 'design' factor (use temporal instead
	of alphabetic order)

2015-07-02  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* DESCRIPTION, NAMESPACE: The default packages other than 'base' are
	now imported (new item for r-devel)

2015-06-12  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* R/dudi.fca.R, R/utilities.R: Modify the '$call' in 'dudi.fpca'

2015-06-08  Stéphane Dray <stephane.dray@univ-lyon1.fr>

	* NAMESPACE, R/cca.R, man/cca.Rd: New summary method for 'cca'
	objects

2015-06-01  Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>

	* DESCRIPTION, man/add.scatter.Rd: Update an exemple which uses the
	new function 'plotEig' of 'adegraphics'

2015-04-14 07:38  aursiber

	* DESCRIPTION: ---------- release of ade4 1.7-2 ----------

2015-04-08 13:27  aursiber

	* DESCRIPTION: ---------- release of ade4 1.7-1 ----------

2015-04-08 09:25  sdray

	* DESCRIPTION, NAMESPACE, R/orthobasis.R, man/orthobasis.Rd: Add
	  new functions to handle orthobasis objects. The orthobasis.listw
	  function is removed and will be available in the forthcoming
	  adespatial

2015-04-03 16:28  aursiber

	* man/kplot.sepan.Rd: The 'kplot.sepan.coa' function becomes
	  'kplotsepan.coa' in 'adegraphics' also

2015-04-03 14:30  aursiber

	* NAMESPACE, R/kplot.sepan.R, man/kplot.sepan.Rd: The
	  'kplot.sepan.coa' function becomes 'kplotsepan.coa'

2015-04-03 14:04  aursiber

	* DESCRIPTION, man/abouheif.eg.Rd, man/avijons.Rd, man/baran95.Rd,
	  man/bsetal97.Rd, man/capitales.Rd, man/chevaine.Rd,
	  man/cnc2003.Rd, man/doubs.Rd, man/ecomor.Rd, man/euro123.Rd,
	  man/ggtortoises.Rd, man/hdpg.Rd, man/jv73.Rd, man/lascaux.Rd,
	  man/lizards.Rd, man/mafragh.Rd, man/maples.Rd, man/microsatt.Rd,
	  man/mjrochet.Rd, man/newick.eg.Rd, man/oribatid.Rd, man/pap.Rd,
	  man/presid2002.Rd, man/procella.Rd, man/rpjdl.Rd,
	  man/tarentaise.Rd, man/trichometeo.Rd: Remove invalid url in man
	  files

2015-03-29 11:59  sdray

	* R/combine.4thcorner.R, R/plot.4thcorner.R: Update the outputs of
	  the combine.4thcorner functions to avoid bugs when the 'D' stat
	  can not be computed (factor with only one level)

2015-03-23 15:40  aursiber

	* DESCRIPTION: ---------- release of ade4 1.7-0 ----------

2015-03-23 10:52  sdray

	* DESCRIPTION: Aurelie is the new official maintainer

2015-03-23 08:45  sdray

	* R/coinertia.R, R/rlq.R: Improve the outputs of the RLQ/coinertia
	  analysis

2015-03-20 09:13  aursiber

	* DESCRIPTION, R/mbpcaiv.R, R/mbpls.R, R/multispati.R,
	  R/orthobasis.R, R/s.image.R, R/s.kde2d.R, R/s.logo.R,
	  man/area.plot.Rd, man/atlas.Rd, man/atya.Rd, man/avijons.Rd,
	  man/buech.Rd, man/butterfly.Rd, man/capitales.Rd, man/ecg.Rd,
	  man/elec88.Rd, man/ggtortoises.Rd, man/irishdata.Rd,
	  man/julliot.Rd, man/jv73.Rd, man/kcponds.Rd, man/mafragh.Rd,
	  man/maples.Rd, man/mdpcoa.Rd, man/multispati.Rd,
	  man/multispati.randtest.Rd, man/multispati.rtest.Rd, man/neig.Rd,
	  man/nipals.Rd, man/olympic.Rd, man/oribatid.Rd, man/pcw.Rd,
	  man/phylog.Rd, man/rhizobium.Rd, man/s.image.Rd, man/s.kde2d.Rd,
	  man/s.logo.Rd, man/sarcelles.Rd, man/score.coa.Rd, man/t3012.Rd,
	  man/tintoodiel.Rd, man/vegtf.Rd, man/westafrica.Rd: Update the
	  use of packages listed in 'Suggests' according with R-3.1.3

2015-03-18 14:07  sdray

	* R/between.R: Correct a bug in 1D plot of plot.between (message of
	  Matthieu Salpeteur 18/03/2015 on adelist)

2015-02-19 19:03  sdray

	* R/dist.dudi.R: Correct a bug to deal with null distances (message
	  of Robin Cura on adelist 16/02/2015

2015-02-18 15:03  sdray

	* R/krandboot.R, R/krandxval.R, R/mbpcaiv.R, R/mbpls.R,
	  R/multiblock.R, R/randxval.R, man/mbpcaiv.Rd, man/mbpls.Rd,
	  man/multiblock.Rd, man/randboot.multiblock.Rd,
	  man/testdim.multiblock.Rd: Update some functions related to
	  multiblock methods. Use 'ginv' to deal with matrices are not of
	  full rank.

2015-01-15 11:50  sdray

	* NAMESPACE, R/betwitdpcoa.R, man/bwca.dpcoa.Rd: Add new functions
	  to perform between- within dpcoa (Dray et al. 2015, MER)

2015-01-09 12:35  sdray

	* src/adesub.c: remove the unused variable 'seed'

2015-01-08 16:47  aursiber

	* man/add.scatter.Rd, man/area.plot.Rd, man/atlas.Rd,
	  man/capitales.Rd, man/chats.Rd, man/corvus.Rd, man/divcmax.Rd,
	  man/gridrowcol.Rd, man/irishdata.Rd, man/mstree.Rd,
	  man/orthobasis.Rd, man/pcw.Rd, man/randxval.Rd, man/rtest.Rd,
	  man/s.class.Rd, man/s.corcircle.Rd, man/s.distri.Rd,
	  man/s.image.Rd, man/s.label.Rd, man/s.logo.Rd, man/s.match.Rd,
	  man/s.traject.Rd, man/s.value.Rd, man/santacatalina.Rd,
	  man/scatterutil.Rd, man/score.Rd, man/table.value.Rd,
	  man/toxicity.Rd, man/triangle.class.Rd, man/westafrica.Rd,
	  man/worksurv.Rd: Modify examples due to modifications in
	  adegraphics

2015-01-08 16:36  sdray

	* src/adesub.c, src/adesub.h: Remove calls to C random number
	  generators (now use R RNG)

2015-01-08 13:59  thioulouse

	* NAMESPACE, R/costatis.R, R/ktab.R, R/pta.R, R/statico.R,
	  man/costatis.Rd, man/costatis.randtest.Rd, man/statico.Rd,
	  man/statico.krandtest.Rd: Added statico.krandtest and
	  costatis.randtest funtions for permutation tests

2014-12-08 14:33  sdray

	* R/fourthcorner.R, R/fourthcorner.rlq.R, R/print.4thcorner.R:
	  Correct a bug to display properly the outputs in the case of 1
	  trait x 1 env variable

2014-11-28 09:38  aursiber

	* man/scatter.coa.Rd: Correct the documentation of the used method
	  in 'scatter.coa'

2014-11-14 08:42  sdray

	* R/mdpcoa.R: correct the call to dist.dna of the ape package

2014-11-14 08:41  sdray

	* NAMESPACE, R/dpcoa.R, R/mdpcoa.R, man/dpcoa.Rd, man/humDNAm.Rd:
	  Update the dpcoa function: names of outputs are modified and the
	  df argument shoul be a site-by-species nor a species-by-sites
	  matrix. This allows to be more coherent with other methods

2014-11-05 15:32  sdray

	* man/atlas.Rd, man/butterfly.Rd, man/chats.Rd, man/dpcoa.Rd,
	  man/gearymoran.Rd, man/gridrowcol.Rd, man/orthobasis.Rd: Modify
	  examples due to modifications in adegraphics

2014-10-30 15:04  sdray

	* data/capitales.rda, man/capitales.Rd: Transform the Spatial
	  component from SpatialPolygonsDataFrame to SpatialPolygons

2014-09-11 14:50  sdray

	* NAMESPACE, R/procuste.R, man/macaca.Rd, man/procuste.Rd: Change
	  names of arguments and outputs of 'procuste' function and add a
	  method 'randtest' for procuste class

2014-09-02 12:04  sdray

	* data/pcw.rda, man/pcw.Rd: Add new dataset (distribution of trees
	  in forest plots along the panama canal)

2014-07-23 14:09  sdray

	* R/fourthcorner.rlq.R: Correct a small bug (used names instead of
	  colnames on a matrix)

2014-06-18 15:26  aursiber

	* DESCRIPTION, NAMESPACE, man/acacia.Rd, man/add.scatter.Rd,
	  man/aravo.Rd, man/ardeche.Rd, man/area.plot.Rd, man/atlas.Rd,
	  man/atya.Rd, man/avijons.Rd, man/avimedi.Rd, man/bacteria.Rd,
	  man/banque.Rd, man/baran95.Rd, man/between.Rd,
	  man/betweencoinertia.Rd, man/bf88.Rd, man/buech.Rd,
	  man/butterfly.Rd, man/capitales.Rd, man/carni70.Rd, man/cca.Rd,
	  man/chats.Rd, man/chazeb.Rd, man/chevaine.Rd, man/clementines.Rd,
	  man/coinertia.Rd, man/coleo.Rd, man/corkdist.Rd, man/corvus.Rd,
	  man/deug.Rd, man/discrimin.Rd, man/dist.prop.Rd,
	  man/dist.quant.Rd, man/doubs.Rd, man/dpcoa.Rd, man/dudi.acm.Rd,
	  man/dudi.coa.Rd, man/dudi.fca.Rd, man/dudi.hillsmith.Rd,
	  man/dudi.mix.Rd, man/dudi.nsc.Rd, man/dudi.pca.Rd, man/ecomor.Rd,
	  man/elec88.Rd, man/euro123.Rd, man/foucart.Rd, man/friday87.Rd,
	  man/fruits.Rd, man/gearymoran.Rd, man/ggtortoises.Rd,
	  man/granulo.Rd, man/gridrowcol.Rd, man/hdpg.Rd,
	  man/housetasks.Rd, man/humDNAm.Rd, man/irishdata.Rd,
	  man/julliot.Rd, man/jv73.Rd, man/kcponds.Rd, man/kdist2ktab.Rd,
	  man/kdisteuclid.Rd, man/kplot.foucart.Rd, man/kplot.mcoa.Rd,
	  man/kplot.mfa.Rd, man/kplot.pta.Rd, man/kplot.sepan.Rd,
	  man/kplot.statis.Rd, man/ktab.Rd, man/ktab.list.df.Rd,
	  man/ktab.list.dudi.Rd, man/lascaux.Rd, man/macaca.Rd,
	  man/macroloire.Rd, man/mafragh.Rd, man/mariages.Rd, man/meau.Rd,
	  man/meaudret.Rd, man/microsatt.Rd, man/mollusc.Rd, man/mstree.Rd,
	  man/multiblock.Rd, man/multispati.Rd, man/neig.Rd, man/niche.Rd,
	  man/nipals.Rd, man/olympic.Rd, man/oribatid.Rd,
	  man/orthobasis.Rd, man/ours.Rd, man/pcaivortho.Rd,
	  man/plot.between.Rd, man/plot.within.Rd, man/presid2002.Rd,
	  man/procuste.Rd, man/pta.Rd, man/rankrock.Rd, man/rpjdl.Rd,
	  man/s.chull.Rd, man/s.image.Rd, man/s.kde2d.Rd,
	  man/s.match.class.Rd, man/santacatalina.Rd, man/sarcelles.Rd,
	  man/scatter.acm.Rd, man/scatter.coa.Rd, man/scatter.dudi.Rd,
	  man/scatter.fca.Rd, man/sco.distri.Rd, man/score.acm.Rd,
	  man/score.pca.Rd, man/seconde.Rd, man/skulls.Rd, man/statis.Rd,
	  man/supcol.Rd, man/suprow.Rd, man/t3012.Rd, man/table.paint.Rd,
	  man/tintoodiel.Rd, man/tortues.Rd, man/toxicity.Rd,
	  man/triangle.plot.Rd, man/trichometeo.Rd, man/vegtf.Rd,
	  man/wca.rlq.Rd, man/westafrica.Rd, man/within.Rd,
	  man/withincoinertia.Rd, man/withinpca.Rd, man/witwit.coa.Rd,
	  man/worksurv.Rd, man/zealand.Rd: Update the examples to become
	  effective when 'adegraphics' is loaded

2014-05-20 13:30  sdray

	* R/add.scatter.R, man/EH.Rd, man/PI2newick.Rd, man/add.scatter.Rd,
	  man/aminoacyl.Rd, man/amova.Rd, man/as.taxo.Rd, man/bacteria.Rd,
	  man/between.Rd, man/betweencoinertia.Rd, man/cailliez.Rd,
	  man/cca.Rd, man/coinertia.Rd, man/corkdist.Rd, man/disc.Rd,
	  man/discrimin.Rd, man/discrimin.coa.Rd, man/dist.binary.Rd,
	  man/dist.dudi.Rd, man/dist.genet.Rd, man/dist.neig.Rd,
	  man/dist.prop.Rd, man/dist.quant.Rd, man/divc.Rd, man/divcmax.Rd,
	  man/dotchart.phylog.Rd, man/dpcoa.Rd, man/dudi.Rd,
	  man/dudi.acm.Rd, man/dudi.coa.Rd, man/dudi.dec.Rd,
	  man/dudi.fca.Rd, man/dudi.hillsmith.Rd, man/dudi.mix.Rd,
	  man/dudi.nsc.Rd, man/dudi.pca.Rd, man/dudi.pco.Rd,
	  man/foucart.Rd, man/gearymoran.Rd, man/gridrowcol.Rd,
	  man/inertia.dudi.Rd, man/is.euclid.Rd, man/kdist.Rd,
	  man/kdist2ktab.Rd, man/kdisteuclid.Rd, man/krandtest.Rd,
	  man/ktab.Rd, man/ktab.data.frame.Rd, man/ktab.list.df.Rd,
	  man/ktab.list.dudi.Rd, man/ktab.within.Rd, man/lingoes.Rd,
	  man/mantel.randtest.Rd, man/mantel.rtest.Rd, man/mcoa.Rd,
	  man/mfa.Rd, man/mld.Rd, man/multispati.Rd,
	  man/multispati.randtest.Rd, man/multispati.rtest.Rd,
	  man/newick.eg.Rd, man/newick2phylog.Rd, man/niche.Rd,
	  man/nipals.Rd, man/njplot.Rd, man/optimEH.Rd, man/originality.Rd,
	  man/orisaved.Rd, man/orthobasis.Rd, man/orthogram.Rd,
	  man/palm.Rd, man/pcaiv.Rd, man/pcaivortho.Rd, man/phylog.Rd,
	  man/plot.between.Rd, man/plot.phylog.Rd, man/plot.within.Rd,
	  man/procuste.Rd, man/procuste.randtest.Rd, man/procuste.rtest.Rd,
	  man/pta.Rd, man/quasieuclid.Rd, man/randEH.Rd,
	  man/randtest.amova.Rd, man/randtest.between.Rd,
	  man/randtest.coinertia.Rd, man/randtest.discrimin.Rd,
	  man/randtest.pcaiv.Rd, man/reconst.Rd, man/rlq.Rd, man/s.logo.Rd,
	  man/s.match.class.Rd, man/scatterutil.Rd, man/sco.class.Rd,
	  man/sco.gauss.Rd, man/sco.label.Rd, man/sco.match.Rd,
	  man/supcol.Rd, man/suprow.Rd, man/symbols.phylog.Rd,
	  man/table.phylog.Rd, man/testdim.Rd, man/variance.phylog.Rd,
	  man/westafrica.Rd, man/within.Rd, man/withincoinertia.Rd,
	  man/withinpca.Rd, man/witwit.coa.Rd: Update email addresses

2014-05-16 15:38  sdray

	* NAMESPACE, R/between.R, R/within.R, man/plot.between.Rd,
	  man/plot.within.Rd: New summary method for within and between
	  classes

2014-05-16 15:19  sdray

	* R/randtest.between.R: Clean the code

2014-04-18 15:50  aursiber

	* R/scatterutil.R, man/area.plot.Rd, man/carni70.Rd,
	  man/divcmax.Rd, man/dudi.acm.Rd, man/ecomor.Rd, man/julliot.Rd,
	  man/microsatt.Rd, man/newick2phylog.Rd, man/orthogram.Rd,
	  man/presid2002.Rd, man/score.Rd: Correct the examples which are
	  not run

2014-04-17 15:44  sdray

	* NAMESPACE, R/krandboot.R, R/krandxval.R, R/mbpcaiv.R, R/mbpls.R,
	  R/multiblock.R, R/randboot.R, R/randxval.R, man/mbpcaiv.Rd,
	  man/mbpls.Rd, man/multiblock.Rd, man/randboot.Rd,
	  man/randboot.multiblock.Rd, man/randxval.Rd,
	  man/testdim.multiblock.Rd: Add new functions for multiblock
	  analysis (coll. with S. Bougeard): multiblock pcaiv and
	  multiblock pls. Add new functions and classes to manage results
	  of two-fold cross-validation and bootstrap

2014-04-17 15:39  sdray

	* data/chickenk.rda, man/chickenk.Rd: New data set chickenk

2014-04-17 15:24  sdray

	* R/testdim.R, man/testdim.Rd: Change argument name for testdim
	  method

2014-04-17 15:22  sdray

	* NAMESPACE, man/bacteria.Rd, man/dudi.acm.Rd,
	  man/dudi.hillsmith.Rd, man/dudi.mix.Rd, man/santacatalina.Rd,
	  man/scatter.coa.Rd: Unexport methods for generic functions
	  scatter and score

2014-04-17 15:19  sdray

	* NAMESPACE, man/adegraphicsLoaded.Rd: Export the function
	  adegraphicsLoaded

2014-04-17 08:19  sdray

	* R/utilities.R: New function 'adegraphicsLoaded' to test if
	  adegraphics is loaded

2014-04-15 08:41  sdray

	* NAMESPACE, R/dudi.R, R/ktab.R, man/dudi.Rd, man/ktab.Rd: Improve
	  '[.ktab' and add '[.dudi': extraction methods allow to select
	  rows and/or columns of dudi and ktab objects

2014-04-15 07:44  sdray

	* ., NAMESPACE, R/ktab.R, R/ktab.data.frame.R, R/ktab.list.df.R,
	  R/ktab.list.dudi.R, R/ktab.match2ktabs.R, R/ktab.within.R,
	  man/ktab.Rd: Clean the building of TL, TC, T4 (they contain names
	  and not numbers) and remove two bugs (building of TC and in
	  [.ktab)

2014-04-11 07:45  sdray

	* R/fourthcorner.rlq.R: Correct a typo

2014-03-13 17:36  sdray

	* R/randtest.rlq.R, src/fourthcorner.c, src/tests.c: Correct some
	  minor bugs and typos

2014-01-14 15:27  thioulouse

	* R/foucart.R, R/kplot.foucart.R, R/kplot.mcoa.R, R/kplot.mfa.R,
	  R/kplot.pta.R, R/kplot.sepan.R, R/kplot.statis.R, R/ktab.R,
	  R/ktab.data.frame.R, R/ktab.list.df.R, R/ktab.list.dudi.R,
	  R/ktab.match2ktabs.R, R/ktab.within.R, R/mcoa.R, R/mdpcoa.R,
	  R/mfa.R, R/pta.R, R/sepan.R, R/statis.R: Global update of TL TC
	  and T4 ktab elements

2014-01-07 15:16  thioulouse

	* R/ktab.R, R/pta.R: row names correction of supIX and supIY in a
	  kcoinertia pta

2013-12-03 13:22  sdray

	* data/mafragh.rda: Modify the order of the sites in the
	  'SpatialPoints' object to be coherent with the 'nb' object

2013-11-19 15:58  sdray

	* DESCRIPTION: ---------- release of ade4 1.6-2 ----------

2013-11-19 15:56  sdray

	* NAMESPACE: Re-export some internal/utility functions that are
	  used by other packages

2013-11-19 15:55  sdray

	* TITLE: Remove the TITLE file which is no more used

2013-11-15 22:41  sdray

	* DESCRIPTION: ---------- release of ade4 1.6-1 ----------

2013-11-15 22:43  sdray

	* man/add.scatter.Rd, man/capitales.Rd, man/dist.ktab.Rd,
	  man/dotchart.phylog.Rd, man/fourthcorner.Rd, man/nipals.Rd,
	  man/s.match.class.Rd, man/scatter.Rd: Reduce line widths

2013-11-14 12:47  sdray

	* DESCRIPTION: ---------- release of ade4 1.6-0 ----------

2013-10-30 12:23  sdray

	* NAMESPACE, man/acacia.Rd, man/add.scatter.Rd, man/ade4toR.Rd,
	  man/as.taxo.Rd, man/avimedi.Rd, man/baran95.Rd,
	  man/combine.4thcorner.Rd, man/costatis.Rd, man/fourthcorner.Rd,
	  man/granulo.Rd, man/kplot.pta.Rd, man/kplot.sepan.Rd,
	  man/kplot.statis.Rd, man/ktab.match2ktabs.Rd, man/ktab.within.Rd,
	  man/meau.Rd, man/meaudret.Rd, man/pcaivortho.Rd, man/phylog.Rd,
	  man/plot.phylog.Rd, man/randtest.amova.Rd, man/reconst.Rd,
	  man/rhone.Rd, man/rlq.Rd, man/rtest.between.Rd,
	  man/scatterutil.Rd, man/statico.Rd, man/statis.Rd, man/supcol.Rd,
	  man/suprow.Rd, man/taxo.eg.Rd, man/ungulates.Rd: The NAMESPACE
	  file (which exported all functions) has be completely rewritten.
	  Utilities and deprecated functions are not exported. S3 methods
	  are declared. Several help pages have been modified to manage
	  these changes.

2013-10-30 12:20  sdray

	* R/rtest.between.R: Now the rtest.between can handle objects
	  created with between and bca functions

2013-10-30 12:19  sdray

	* R/supcol.R, R/suprow.R: suprow.default and supcol.default become
	  suprow.dudi and supcol.dudi

2013-10-28 13:55  sdray

	* R/statis.R: Improve the speed of statis function. Thanks to
	  Benoit Thieurmel (email sent 11/01/2013)

2013-10-28 12:53  sdray

	* R/mcoa.R: Correct a bug in the scaling of Tl1. Thanks to P. Bady,
	  adelist 3/10/2013

2013-10-03 11:26  sdray

	* R/ktab.within.R: Correct a bug in ktab.within: column names were
	  not handle correctly in some cases (Thanks to Pierre Bady,
	  message on adelist 3/10/2013). Moreover, the order of bloc is
	  given by levels and nor unique

2013-09-19 15:58  sdray

	* data/atlas.rda, data/atya.rda, data/avijons.rda, data/buech.rda,
	  data/butterfly.rda, data/capitales.rda, data/elec88.rda,
	  data/ggtortoises.rda, data/irishdata.rda, data/julliot.rda,
	  data/jv73.rda, data/kcponds.rda, data/mafragh.rda,
	  data/sarcelles.rda, data/t3012.rda, data/tintoodiel.rda,
	  data/vegtf.rda, data/zealand.rda, man/cailliez.Rd,
	  man/capitales.Rd, man/lingoes.Rd, man/s.logo.Rd: Correct a small
	  bug in data files and update the help files to pass R CMD check

2013-09-19 11:39  sdray

	* data/atlas.rda, data/atya.rda, data/avijons.rda, data/buech.rda,
	  data/butterfly.rda, data/capitales.rda, data/elec88.rda,
	  data/ggtortoises.rda, data/irishdata.rda, data/julliot.rda,
	  data/jv73.rda, data/kcponds.rda, data/mafragh.rda,
	  data/sarcelles.rda, data/t3012.rda, data/tintoodiel.rda,
	  data/vegtf.rda, data/zealand.rda: Add Spatial/nb objects in data
	  files to prepare the future deprecation of area/neig/contour
	  objects. Moreover, spatial information in data sets 't3012',
	  'elec88' and 'capitales' has been updated (coordinate system,
	  city names, etc).

2013-09-17 15:08  sdray

	* R/scalewt.R: Correct a small bug in scalewt

2013-07-23 22:24  sdray

	* R/plot.4thcorner.R, man/fourthcorner.Rd: Add colors in
	  fourthcorner plots

2013-05-28 08:10  sdray

	* R/scalewt.R: correct a small bug in scalewt when scale = FALSE

2013-05-07 21:45  sdray

	* R/combine.4thcorner.R, R/fourthcorner.R, R/fourthcorner.rlq.R,
	  R/fourthcorner2.R, R/p.adjust.4thcorner.R, R/plot.4thcorner.R,
	  R/print.4thcorner.R, R/summary.4thcorner.R, R/table.value.R,
	  man/combine.4thcorner.Rd, man/fourthcorner.Rd, man/rlq.Rd,
	  src/fourthcorner.c: Complete reimplementation of the outputs of
	  fourthcorner functions. Now they return krandtest/randtest
	  objects and adjustments for multiple tests can be used.
	  Experimental fourthcorner.rlq

2013-05-07 19:51  sdray

	* data/aravo.rda, man/aravo.Rd: New dataset: aravo

2013-05-03 16:01  sdray

	* R/scatterutil.R: New argument 'bg' for scatterutil.base function

2013-04-30 21:07  sdray

	* R/randtest-internal.R, R/randtest.coinertia.R, R/randtest.rlq.R,
	  R/rlq.R, man/rlq.Rd, src/adesub.c, src/adesub.h, src/testrlq.c,
	  src/tests.c: Use the new 'dudi.type' function. New 'modeltype'
	  argument for randtest.rlq. New function 'combine.randtest.rlq'.

2013-04-29 15:55  sdray

	* R/krandtest.R, man/krandtest.Rd: Update the doc of krandtest

2013-04-29 15:29  sdray

	* R/dudi.acm.R: Use the new fac2disj utility function

2013-04-29 15:28  sdray

	* R/dudi.acm.R, R/dudi.hillsmith.R, R/dudi.mix.R, R/fourthcorner.R,
	  R/fourthcorner2.R, R/rlq.R, R/s.class.R, R/s.match.class.R,
	  R/triangle.class.R, man/ade4-internal.Rd: Use the new fac2disj
	  utility function

2013-04-29 13:14  sdray

	* R/krandtest.R: krandtest can now handle adjustments for multiple
	  testing

2013-04-26 15:31  sdray

	* R/coinertia.R: Correct a small bug in the choice of the number of
	  kept axes

2013-04-26 15:26  sdray

	* R/dudi.acm.R, R/utilities.R, man/ade4-internal.Rd,
	  man/randtest-internal.Rd: New utilities functions

2013-04-26 15:03  sdray

	* R/scalewt.R, man/scalewt.Rd: New functions to compute weighted
	  mean/var/cov for the levels of a factor

2013-04-26 11:38  sdray

	* R/dpcoa.R: dpcoa now returns

2013-04-05 12:31  sdray

	* DESCRIPTION: ---------- release of ade4 1.5-2 ----------

2013-01-09 14:42  sdray

	* R/procuste.R, man/procuste.Rd: value 'nfact' is renamed 'nf'

2012-10-18 10:27  thioulouse

	* man/coinertia.Rd: Small typo fix

2012-10-18 10:26  thioulouse

	* R/betweencoinertia.R: Fixed a bug introduced in print.betcoi
	  function

2012-10-17 16:29  sdray

	* src/tests.c: Correct a small bug in loops for the acm case

2012-10-17 15:49  sdray

	* R/randtest-internal.R, src/testrlq.c, src/tests.c: Clean the C
	  code and correct a small bug (R strings were transformed in
	  integers in C) that provokes problems on Mac OS X (thanks to
	  Vincent Miele for his help)

2012-10-17 15:47  sdray

	* R/rlq.R: Correct the number of repetitions in randtest.rlq (was
	  nrepet+1 instead of nrepet)

2012-10-16 13:32  thioulouse

	* R/betweencoinertia.R, R/coinertia.R, man/coinertia.Rd: Edited
	  print functions for coinertia and betweencoinertia analyses

2012-10-16 13:30  thioulouse

	* R/scatter.fca.R: Bug correction in the call to s.distri: needed
	  to be pass the xax and yax params

2012-09-21 16:02  sdray

	* R/sco.gauss.R: Correct a bug: dnorm has 'sd' as arguments and not
	  'var' (Thanks to Alice Julien-Laferriere)

2012-09-14 11:21  sdray

	* DESCRIPTION: ---------- release of ade4 1.5-1 ----------

2012-09-14 11:19  sdray

	* R/randtest.cca.R, R/randtest.pcaiv.R, R/randtest.pcaivortho.R:
	  Calls to Fortran routine 'dqrls' are replaced by public 'lm.wfit'

2012-07-27 14:49  sdray

	* R/bca.rlq.R, R/between.R, R/betweencoinertia.R, R/coinertia.R,
	  R/corkdist.R, R/discrimin.R, R/dpcoa.R, R/dudi.R, R/dudi.acm.R,
	  R/kplot.sepan.R, R/mcoa.R, R/multispati.R, R/niche.R,
	  R/randtest.coinertia.R, R/randtest.discrimin.R, R/rlq.R,
	  R/rtest.between.R, R/rtest.discrimin.R, R/scatter.acm.R,
	  R/scatter.fca.R, R/score.acm.R, R/score.coa.R, R/score.mix.R,
	  R/score.pca.R, R/testdim.R, R/wca.rlq.R, R/withincoinertia.R,
	  R/witwit.R, R/witwitsepan.R: Use eval.parent(..) instead of
	  eval(.., sys.frame(0)) to allow the call of ade4 functions inside
	  other functions

2012-07-25 13:30  sdray

	* R/coinertia.R: Update the summary.coinertia function that now
	  returns invisible results

2012-07-25 13:28  sdray

	* R/dudi.R: To avoid confusion, the term 'Explained' is replaced by
	  'Projected' in the summary.dudi function

2012-07-25 12:47  sdray

	* R/pcaiv.R, R/pcaivortho.R, man/pcaiv.Rd, man/pcaivortho.Rd: New
	  functions 'summary.pcaiv' and 'summary.pcaivortho'

2012-07-25 12:46  sdray

	* R/dudi.R, man/dudi.Rd: New function 'summary.dudi'

2012-07-25 10:53  sdray

	* R/variance.phylog.R, man/variance.phylog.Rd: Returned is now an
	  'anova' object (was 'table')

2012-07-25 09:23  sdray

	* R/bca.rlq.R, R/between.R, R/betweencoinertia.R, R/coinertia.R,
	  R/discrimin.R, R/dpcoa.R, R/dudi.R, R/foucart.R, R/ktab.R,
	  R/mcoa.R, R/mfa.R, R/multispati.R, R/niche.R, R/nipals.R,
	  R/pcaiv.R, R/pcaivortho.R, R/pta.R, R/rlq.R, R/sepan.R,
	  R/statis.R, R/variance.phylog.R, R/wca.rlq.R, R/within.R,
	  R/withincoinertia.R, R/witwit.R: Outputs produced by print.*
	  functions are now matrices (were table)

2012-07-10 12:03  thioulouse

	* R/coinertia.R: Fix the problem of complex eigenvalues sometimes
	  returned by eigen in the case n < (p, q)

2012-06-01 07:23  jombart

	* R/orthogram.R, man/ade4-deprecated.Rd, man/orthogram.Rd:
	  Orthogram function is now deprecated.

2012-04-23 12:29  sdray

	* src/testdim.c: Correct a small bug (void function cannot return
	  values)

2012-04-23 07:59  sdray

	* man/neig.Rd: Modify an example due to a change in the deldir
	  package

2012-04-19 11:11  sdray

	* DESCRIPTION: ---------- release of ade4 1.5-0 ----------

2012-04-17 15:23  sdray

	* R/bca.rlq.R, R/wca.rlq.R, data/piosphere.rda, man/bca.rlq.Rd,
	  man/piosphere.Rd, man/wca.rlq.Rd: Add functions/data for partial
	  RLQ analysis proposed by Wesuls et al (2012)

2012-04-16 13:06  sdray

	* R/ade4toR.R, R/amova.R, R/area.plot.R, R/between.R,
	  R/betweencoinertia.R, R/cailliez.R, R/coinertia.R, R/corkdist.R,
	  R/costatis.R, R/discrimin.R, R/dist.quant.R, R/dotcircle.R,
	  R/dpcoa.R, R/dudi.acm.R, R/dudi.hillsmith.R, R/dudi.pco.R,
	  R/foucart.R, R/gearymoran.R, R/is.euclid.R, R/kdisteuclid.R,
	  R/kplot.foucart.R, R/kplot.mcoa.R, R/kplot.mfa.R, R/kplot.pta.R,
	  R/kplot.sepan.R, R/kplot.statis.R, R/lingoes.R, R/mcoa.R,
	  R/mdpcoa.R, R/mfa.R, R/multispati.R, R/neig.R, R/newick2phylog.R,
	  R/niche.R, R/nipals.R, R/orthobasis.R, R/orthogram.R, R/pcaiv.R,
	  R/pcaivortho.R, R/plot.phylog.R, R/procuste.R, R/pta.R,
	  R/quasieuclid.R, R/rlq.R, R/s.arrow.R, R/s.corcircle.R,
	  R/s.hist.R, R/s.kde2d.R, R/s.match.R, R/s.multinom.R,
	  R/s.traject.R, R/s.value.R, R/scatter.acm.R, R/scatter.coa.R,
	  R/scatter.dudi.R, R/scatter.fca.R, R/scatterutil.R,
	  R/sco.quant.R, R/score.acm.R, R/score.mix.R, R/sepan.R,
	  R/statis.R, R/symbols.phylog.R, R/table.cont.R, R/table.dist.R,
	  R/table.paint.R, R/table.phylog.R, R/table.value.R,
	  R/triangle.plot.R, R/within.R, R/withincoinertia.R, R/witwit.R,
	  R/witwitsepan.R: Use full argument names to avoid partial
	  matching

2012-04-07 21:29  sdray

	* DESCRIPTION: ---------- release of ade4 1.4-18 ----------

2012-04-07 21:16  sdray

	* R/testdim.R, src/testdim.c: Modify testdim functions to avoid
	  calls to 'exit' in C code

2012-04-07 21:13  sdray

	* NAMESPACE, R/ade4.R: Remove .FirstLib and use NAMESPACE
	  (UseDynLib) to load DLL

2012-04-02 16:23  sdray

	* data/bacteria.rda, data/capitales.rda, data/elec88.rda,
	  data/hdpg.rda, data/irishdata.rda, data/lascaux.rda,
	  data/mafragh.rda, data/perthi02.rda, data/tarentaise.rda,
	  data/vegtf.rda: resave some data files to improve file
	  compression

2012-03-16 05:55  sdray

	* DESCRIPTION: Update email addresses

2012-01-20 12:45  jombart

	* DESCRIPTION, NAMESPACE: Added a namespace (the default one
	  generated by R 2.14.1) to ensure compatibility with older R
	  release. Now stating the dependency on R >= 2.10 in DESCRIPTION.

2011-11-07 15:21  sdray

	* R/mantel.rtest.R: Improve the performance (speed) of the
	  permutation procedure (suggestion by Josh Wiley jwiley.psych at
	  gmail.com)

2011-05-11 11:31  sdray

	* INDEX: Delete INDEX file so that it would be generated and
	  updated automatically

2011-04-22 11:13  sdray

	* R/randtest.between.R, man/randtest.between.Rd: Update the
	  function to deal with objects created by the new bca function

2011-04-11 14:23  sdray

	* DESCRIPTION: ---------- release of ade4 1.4-17 ----------

2011-04-07 12:00  sdray

	* R/pcaiv.R: Correct a bug: intercept is not included in 'cor' 
	  to avoid a warning produced by scalewt

2011-04-07 11:32  sdray

	* R/mfa.R, man/mfa.Rd, man/statis.Rd: Correct the documentation
	  (suggestion by D. Laloe) and improve the code of mfa (use of
	  match.arg to consider the argument 'option'

2011-04-07 11:10  sdray

	* R/withinpca.R, man/withinpca.Rd: Improve the documentation
	  (suggestion by L. Dubroca on adelist 01/03/2011) and the code
	  (suggestion by D. Laloe)

2011-04-07 07:45  sdray

	* R/between.R, R/betweencoinertia.R, R/within.R,
	  R/withincoinertia.R, man/between.Rd, man/betweencoinertia.Rd,
	  man/plot.between.Rd, man/plot.within.Rd, man/within.Rd,
	  man/withincoinertia.Rd: Functions within, withincoinertia,
	  betwee, betweencoinertia are now deprecated to avoid a conflict
	  names with the base:::within. New generic bca, wca with methods
	  bca.dudi, bca.coinertia, wca.dudi and wca.coinertia should be
	  used instead.

2011-04-06 16:06  sdray

	* man/scatter.Rd: Correct a typo

2011-04-06 16:06  sdray

	* man/scatter.Rd: Add the doc for the 'main' argument

2011-04-06 14:33  sdray

	* R/dudi.R, man/scatter.Rd: New generic functions 'biplot' and
	  'screeplot' to plot the outputs of an analysis (class dudi)

2011-02-24 14:11  sdray

	* data/macroloire.rda, data/rhizobium.rda, data/woangers.rda:
	  Compress some ASCII data files

2011-02-24 14:00  sdray

	* R/quasieuclid.R: Attributes of the original dist object are
	  preserved

2011-02-24 13:55  sdray

	* R/cailliez.R, R/lingoes.R, man/cailliez.Rd, man/lingoes.Rd: Add
	  an argument to correct (or not) null distances

2011-02-24 13:47  sdray

	* R/is.euclid.R: Add a warning for null distances

2010-09-27 14:42  sdray

	* man/corvus.Rd: Correct a typo concerning the units of two
	  variables (cm -> mm). Thanks to Peter Saly

2010-08-18 15:25  sdray

	* ChangeLog: ---------- release of ade4 1.4-16 ----------

2010-08-18 15:10  sdray

	* DESCRIPTION: ---------- release of ade4 1.4-16 ----------

2010-05-08 05:41  thioulouse

	* data/meaudret.rda: Updated meaudret environmental dataframe names

2010-05-06 16:16  sdray

	* man/triangle.class.Rd: Remove auto-generated content in the
	  documentation

2010-04-29 14:49  sdray

	* R/s.class.R: argument 'pch' is now recycled so that one symbol
	  could be assigned to each point. Thanks to Vincent Le Garrec for
	  his question.

2010-04-12 08:10  sdray

	* man/dist.binary.Rd: Correct some bibliographic references. Thanks
	  to Pierre Legendre.

2010-03-19 13:19  sdray

	* R/dist.ktab.R: Correct a small bug in the ldist.ktab function

2010-03-10 09:13  thioulouse

	* man/ktab.match2ktabs.Rd: removed deprecated email address in
	  ktab.match2ktabs documentation file

2010-03-05 15:06  jombart

	* R/scalewt.R: Fixed a bug in the scaling of multivariate data
	  using scalewt: when units of the variable were too heterogeneous,
	  variables with the smallest variances were not scaled. This did
	  not affect dudi.pca, but other functions such as discrimin.

2010-02-10 12:12  sdray

	* man/rlq.Rd: Correct a typo in the description

2010-02-10 12:00  sdray

	* man/rlq.Rd: Correct a typo in the description

2009-12-18 08:46  sdray

	* man/fourthcorner.Rd: Add information on the outputs of the print
	  and summary functions

2009-12-09 14:49  sdray

	* man/banque.Rd, man/dudi.fca.Rd, man/fruits.Rd, man/meau.Rd,
	  man/meaudret.Rd, man/monde84.Rd, man/ours.Rd, man/rhizobium.Rd,
	  man/woangers.Rd, man/worksurv.Rd: Correct the use of the command
	  '\item' in '\enumerate' environment

2009-12-04 13:33  sdray

	* R/plot.4thcorner.R, man/fourthcorner.Rd, src/fourthcorner.c: The
	  argument 'type' in plot.4thcorner can now takes the value D2 to
	  plot correlation instead of homogeneity statistics in the case of
	  qualitative / quantitative association

2009-12-04 13:28  sdray

	* man/dist.ktab.Rd, man/woangers.Rd: Put some examples in
	  '\dontrun' to speed up the checking of example

2009-12-03 13:27  sdray

	* ChangeLog: ---------- release of ade4 1.4-14 ----------

2009-12-03 13:22  sdray

	* DESCRIPTION: ---------- release of ade4 1.4-14 ----------

2009-12-01 10:01  sdray

	* DESCRIPTION, man/area.plot.Rd, man/neig.Rd, man/oribatid.Rd: Use
	  the package 'deldir' instead of 'tripack' which has serious
	  license issues. Correct the use of the class polylist which is
	  not exported in the new version of maptools (0.7-27)

2009-11-12 12:08  thioulouse

	* R/costatis.R: changes to the costatis function to remove cat
	  outputs in non-interactive mode (i.e., when scannf = FALSE)

2009-11-12 08:40  sdray

	* R/s.match.class.R, man/s.match.class.Rd: Add new function
	  's.match.class' to represent two systems of coordinates and a
	  partitioning

2009-11-12 08:38  sdray

	* R/betweencoinertia.R, R/withincoinertia.R, man/betweencoinertia.Rd,
	  man/withincoinertia.Rd: Add new functions
	  'betweencoinertia' and 'withincoinertia' for between- and
	  within-coinertia analysis

2009-11-09 12:06  thioulouse

	* R/costatis.R, R/statico.R, man/costatis.Rd, man/statico.Rd,
	  man/wgcoia.Rd: New functions to perform STATICO and CO-STATIS

2009-10-30 08:49  sdray

	* R/kdisteuclid.R: Use 'match.arg' to evaluate the value of the
	  'method' argument

2009-10-29 08:56  sdray

	* DESCRIPTION: ---------- release of ade4 1.4-13 ----------

2009-10-28 15:29  abdufour

	* data/meaudret.rda: addition of the species names in the dataset

2009-10-28 15:08  abdufour

	* man/meau.Rd, man/meaudret.Rd: information about the link between
	  the two datasets meau and meaudret has been added

2009-10-28 14:13  sdray

	* R/phylog.R, R/plot.phylog.R: Correct bug in the use of basic
	  regular expressions (argument 'extended' is deprecated R 2.11.0)

2009-10-27 14:50  spavoine

	* R/originality.R, man/originality.Rd: new methods have been added
	  in the originality function

2009-10-27 14:08  spavoine

	* data/woangers.rda, man/woangers.Rd, man/rhizobium.Rd, data/rhizobium.rda,
	  data/macroloire.rda, man/macroloire.Rd: three new data sets added

2009-10-27 14:05  spavoine

	* R/dist.ktab.R, man/dist.ktab.Rd: new functions of distance for
	  multiple types of variables

2009-10-27 14:01  spavoine

	* R/apqe.R, man/apqe.Rd: new functions for diversity partitioning

2009-10-27 13:59  spavoine

	* R/mdpcoa.R, man/mdpcoa.Rd: new functions for multiple dpcoa

2009-10-23 12:21  sdray

	* ChangeLog: ---------- release of ade4 1.4-12 ----------

2009-10-23 12:19  sdray

	* DESCRIPTION: ---------- release of ade4 1.4-12 ----------

2009-10-21 14:18  sdray

	* data/toxicity.rda, man/toxicity.Rd: Correct species names and
	  table dimensions (thanks to Jean Lobry)

2009-10-21 13:34  thioulouse

	* R/dudi.R: bug on row.names in as.dudi (thanks to Jean Lobry)

2009-10-20 14:18  sdray

	* R/newick2phylog.R: Correct bug in the use of basic regular
	  expressions

2009-10-20 14:15  sdray

	* man/multispati.Rd, man/multispati.randtest.Rd,
	  man/multispati.rtest.Rd: update links to spdep functions in the
	  documentation

2009-10-02 09:07  simonpenel

	* R/newick2phylog.R, man/s.value.Rd, man/variance.phylog.Rd: Minor
	  bugs have been fixes. Replace extended = FALSE by fixed = TRUE

2009-09-22 08:10  thioulouse

	* man/scatter.dudi.Rd: added some precision about biplots in
	  scatter.dudi.Rd

2009-07-24 14:53  thioulouse

	* R/pta.R: corrected a small bug in row names of supIX and supIY df

2009-05-11 09:19  sdray

	* R/dist.binary.R, man/dist.binary.Rd: Numeric matrix can be used
	  for the 'df' argument (request of E. Paradis)

2009-04-20 15:53  sdray

	* R/area.plot.R: argument nclasslegend is now active. bug
	  identified by C. Calenge

2009-04-01 11:11  sdray

	* ChangeLog: ---------- release of ade4 1.4-11 ----------

2009-04-01 11:07  sdray

	* DESCRIPTION: ---------- release of ade4 1.4-11 ----------

2009-03-26 14:14  sdray

	* man/buech.Rd, man/corvus.Rd, man/dist.binary.Rd,
	  man/dist.prop.Rd, man/dist.quant.Rd, man/kplot.mcoa.Rd,
	  man/kplot.pta.Rd, man/ktab.Rd, man/maples.Rd, man/mcoa.Rd,
	  man/mfa.Rd, man/njplot.Rd, man/orthogram.Rd, man/phylog.Rd,
	  man/randtest.coinertia.Rd, man/scatter.fca.Rd,
	  man/scatterutil.Rd, man/supcol.Rd, man/withinpca.Rd: Make Rd
	  files pass R-2.9.0 (devel) parser 2 checks

2009-02-03 12:39  abdufour

	* man/randEH.Rd: replace PD in EH

2009-02-03 12:32  abdufour

	* man/optimEH.Rd: replace PD in EH

2008-12-12 14:04  sdray

	* ChangeLog: ---------- release of ade4 1.4-10 ----------

2008-12-12 14:03  sdray

	* DESCRIPTION: ---------- release of ade4 1.4-10 ----------

2008-12-11 14:45  sdray

	* R/combine.4thcorner.R, R/fourthcorner.R, R/fourthcorner2.R,
	  R/plot.4thcorner.R, R/print.4thcorner.R, R/summary.4thcorner.R,
	  man/fourthcorner.Rd, src/fourthcorner.c: new functions
	  implementing the fourthcorner method and extensions presented in
	  Dray and Legendre (2008)

2008-12-11 13:23  sdray

	* src/adesub.c, src/adesub.h, src/testdim.c: new functions to
	  permute matrices used in testdim and fourthcorner are now in
	  adesub

2008-12-11 13:14  sdray

	* man/RVdist.randtest.Rd, man/randtest-internal.Rd,
	  man/scatterutil.Rd: remove empty sections

2008-12-11 13:05  sdray

	* man/dudi.fca.Rd: add a second argument to the \item macro

2008-12-11 13:04  sdray

	* man/witwit.coa.Rd: remove invalid whitespaces

2008-12-01 15:34  jombart

	* R/gearymoran.R: small typo repared

2008-12-01 15:19  jombart

	* R/gearymoran.R: Added a match.arg to gearymoran (in multivariate
	  case, was messed up.

2008-06-30 10:55  sdray

	* R/niche.R: Add a global test of the average marginality for all
	  species

2008-06-13 10:33  jombart

	* R/dudi.acm.R, R/dudi.coa.R, R/dudi.dec.R, R/dudi.fca.R,
	  R/dudi.hillsmith.R, R/dudi.mix.R, R/dudi.nsc.R, R/dudi.pca.R:
	  Added a as.data.frame(df) to dudi methods.

2008-06-11 11:04  sdray

	* data/abouheif.eg.rda: new data files

2008-06-11 10:59  sdray

	* data/acacia.rda, data/aminoacyl.rda, data/apis108.rda,
	  data/ardeche.rda, data/arrival.rda, data/atlas.rda,
	  data/atya.rda, data/avijons.rda, data/avimedi.rda,
	  data/aviurba.rda, data/bacteria.rda, data/banque.rda,
	  data/baran95.rda, data/bf88.rda, data/bordeaux.rda,
	  data/bsetal97.rda, data/buech.rda, data/butterfly.rda,
	  data/capitales.rda, data/carni19.rda, data/carni70.rda,
	  data/carniherbi49.rda, data/casitas.rda, data/chatcat.rda,
	  data/chats.rda, data/chazeb.rda, data/chevaine.rda,
	  data/clementines.rda, data/cnc2003.rda, data/coleo.rda,
	  data/corvus.rda, data/deug.rda, data/doubs.rda,
	  data/dunedata.rda, data/ecg.rda, data/ecomor.rda,
	  data/elec88.rda, data/escopage.rda, data/euro123.rda,
	  data/fission.rda, data/friday87.rda, data/fruits.rda,
	  data/ggtortoises.rda, data/granulo.rda, data/hdpg.rda,
	  data/housetasks.rda, data/humDNAm.rda, data/ichtyo.rda,
	  data/irishdata.rda, data/julliot.rda, data/jv73.rda,
	  data/kcponds.rda, data/lascaux.rda, data/lizards.rda,
	  data/macaca.rda, data/macon.rda, data/mafragh.rda,
	  data/maples.rda, data/mariages.rda, data/meau.rda,
	  data/meaudret.rda, data/microsatt.rda, data/mjrochet.rda,
	  data/mollusc.rda, data/monde84.rda, data/morphosport.rda,
	  data/newick.eg.rda, data/njplot.rda, data/olympic.rda,
	  data/oribatid.rda, data/ours.rda, data/palm.rda, data/pap.rda,
	  data/perthi02.rda, data/presid2002.rda, data/procella.rda,
	  data/rankrock.rda, data/rhone.rda, data/rpjdl.rda,
	  data/santacatalina.rda, data/sarcelles.rda, data/seconde.rda,
	  data/skulls.rda, data/steppe.rda, data/syndicats.rda,
	  data/t3012.rda, data/tarentaise.rda, data/taxo.eg.rda,
	  data/tintoodiel.rda, data/tithonia.rda, data/tortues.rda,
	  data/toxicity.rda, data/trichometeo.rda, data/ungulates.rda,
	  data/vegtf.rda, data/veuvage.rda, data/westafrica.rda,
	  data/worksurv.rda, data/yanomama.rda, data/zealand.rda: new data
	  files

2008-06-11 10:58  sdray

	* data/abouheif.eg.rda, data/acacia.rda, data/aminoacyl.rda,
	  data/apis108.rda, data/ardeche.rda, data/arrival.rda,
	  data/atlas.rda, data/atya.rda, data/avijons.rda,
	  data/avimedi.rda, data/aviurba.rda, data/bacteria.rda,
	  data/banque.rda, data/baran95.rda, data/bf88.rda,
	  data/bordeaux.rda, data/bsetal97.rda, data/buech.rda,
	  data/butterfly.rda, data/capitales.rda, data/carni19.rda,
	  data/carni70.rda, data/carniherbi49.rda, data/casitas.rda,
	  data/chatcat.rda, data/chats.rda, data/chazeb.rda,
	  data/chevaine.rda, data/clementines.rda, data/cnc2003.rda,
	  data/coleo.rda, data/corvus.rda, data/deug.rda, data/doubs.rda,
	  data/dunedata.rda, data/ecg.rda, data/ecomor.rda,
	  data/elec88.rda, data/escopage.rda, data/euro123.rda,
	  data/fission.rda, data/friday87.rda, data/fruits.rda,
	  data/ggtortoises.rda, data/granulo.rda, data/hdpg.rda,
	  data/housetasks.rda, data/humDNAm.rda, data/ichtyo.rda,
	  data/irishdata.rda, data/julliot.rda, data/jv73.rda,
	  data/kcponds.rda, data/lascaux.rda, data/lizards.rda,
	  data/macaca.rda, data/macon.rda, data/mafragh.rda,
	  data/maples.rda, data/mariages.rda, data/meau.rda,
	  data/meaudret.rda, data/microsatt.rda, data/mjrochet.rda,
	  data/mollusc.rda, data/monde84.rda, data/morphosport.rda,
	  data/newick.eg.rda, data/njplot.rda, data/olympic.rda,
	  data/oribatid.rda, data/ours.rda, data/palm.rda, data/pap.rda,
	  data/perthi02.rda, data/presid2002.rda, data/procella.rda,
	  data/rankrock.rda, data/rhone.rda, data/rpjdl.rda,
	  data/santacatalina.rda, data/sarcelles.rda, data/seconde.rda,
	  data/skulls.rda, data/steppe.rda, data/syndicats.rda,
	  data/t3012.rda, data/tarentaise.rda, data/taxo.eg.rda,
	  data/tintoodiel.rda, data/tithonia.rda, data/tortues.rda,
	  data/toxicity.rda, data/trichometeo.rda, data/ungulates.rda,
	  data/vegtf.rda, data/veuvage.rda, data/westafrica.rda,
	  data/worksurv.rda, data/yanomama.rda, data/zealand.rda: remove
	  corrupted data files

2008-06-10 14:12  sdray

	* ChangeLog, DESCRIPTION, INDEX, R, TITLE, data, inst, man, src:
	  move from trunk to pkg after initial import using cvs2svn

2008-06-10 14:01  sdray

	* man: remove man folder

2008-06-10 14:01  sdray

	* R: remove R folder

2008-06-10 14:12  sdray

	* ChangeLog, DESCRIPTION, INDEX, R, TITLE, data, inst, man, src:
	  move from trunk to pkg after initial import using cvs2svn

2008-05-23 14:12  dray

	* ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-9
	  ----------

2008-05-23 12:12  dray

	* R/niche.R: Correct a syntax error

2008-05-23 12:00  dray

	* R/mantel.randtest.R, R/procuste.randtest.R: Correct a bug. The
	  number of repetitions was not correct ((nrepet + 1) instead of
	  nrepet)

2008-05-23 11:53  dray

	* R/niche.R, R/randtest.between.R, R/randtest.coinertia.R,
	  R/randtest.discrimin.R: Correct a bug. The number of repetitions
	  was not correct ((nrepet + 1) instead of nrepet)

2008-05-23 11:46  dray

	* R/krandtest.R, R/randtest.amova.R, man/krandtest.Rd: the class
	  krandtest now accepts a vector of alternative hypotheses instead
	  of a common alternative hypothesis for the k tests (email of Kim
	  Milferstedt on RHelp)

2008-05-16 13:54  dray

	* ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-8
	  ----------

2008-05-07 11:29  jthioulo

	* R/dudi.acm.R: bug correction (mail of JR Lobry on adelist):
	  (any(row.w) < 0) vs. (any(row.w < 0))

2008-05-07 11:27  jthioulo

	* R/dudi.R: bug correction (mail of JR Lobry on adelist):
	  any(col.w) < 0 vs. any(col.w < 0)

2008-04-18 14:37  penel

	* data/ggtortoises.rda: pixmap S3 objects transformed into S4 class

2008-04-18 13:33  dray

	* ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-7
	  ----------

2008-04-18 13:31  dray

	* data/capitales.rda: pixmap S3 objects transformed into S4 class

2008-04-17 11:05  dray

	* ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-6
	  ----------

2008-04-16 17:02  dray

	* R/phylog.R: Correct a bug in phylog.extract (mail of S. Ollier)

2008-04-16 16:36  dray

	* src/adesub.c, src/adesub.h, src/testrlq.c: matcentragehi in now
	  in adesub

2008-04-16 16:33  dray

	* R/nipals.R, man/nipals.Rd: New function for NIPALS algorithm,
	  i.e. PCA with (or without) NA

2008-04-16 16:31  dray

	* man/randtest.Rd: add some words about the computation of pvalues
	  for two-sided test

2008-04-16 13:18  dufour

	* man/ade4.package.Rd: *** empty log message ***

2008-04-16 10:12  dufour

	* man/pcaiv.Rd: *** empty log message ***

2008-04-14 12:41  penel

	* man/table.phylog.Rd: Example table.phylog set to dontrun

2008-04-02 11:16  dray

	* man/multispati.Rd, man/vegtf.Rd: Update the source reference:
	  Dray et al. (2008)

2008-03-27 14:28  dufour

	* man/dudi.pca.Rd: Modifications : explanations about values (cent
	  and norm) ; it{} into emph{}.

2008-03-27 13:47  dufour

	* man/dudi.pca.Rd: Modification of explanations ($cent and $norm)

2008-03-26 10:29  dray

	* R/sco.distri.R: correct a bug (identified by S. Pavoine): default
	  label argument was badly considered when one column contains only
	  O's

2008-03-20 15:10  dray

	* R/scatter.R, R/scatterutil.R, man/scatter.Rd, man/scatterutil.Rd:
	  New utility function scatterutil.sco and scatterutil.convrot90
	  for 1D graphical representation

2008-03-20 15:06  dray

	* R/sco.gauss.R, man/sco.gauss.Rd: New function sco.gauss for 1D
	  graphical representation

2008-03-20 15:05  dray

	* R/sco.match.R, man/sco.match.Rd: New function sco.match for 1D
	  graphical representation

2008-03-20 15:05  dray

	* R/sco.class.R, man/sco.class.Rd: New function sco.class for 1D
	  graphical representation

2008-03-20 15:05  dray

	* R/sco.label.R, man/sco.label.Rd: New function sco.label for 1D
	  graphical representation

2008-03-19 16:00  dray

	* R/sco.qual.R: Functions of this file are now in sco.label.R and
	  sco.gauss.R

2008-03-18 14:18  dray

	* inst/CITATION: Add two new references to the CITATION file

2008-03-17 15:47  dray

	* R/randtest.cca.R, R/randtest.pcaiv.R, R/randtest.pcaivortho.R,
	  man/randtest.pcaiv.Rd: News functions for permutation tests in
	  constrained analysis

2008-02-05 13:26  dray

	* src/testdim.c: Correct a bug in memory allocation of the function
	  svdd

2008-01-29 15:07  jthioulo

	* man/sco.label.Rd: added function: Draws evenly spaced labels,
	  each label linked to the corresponding value of a numeric score

2008-01-29 15:07  jthioulo

	* man/sco.gauss.Rd: added function: Draws Gauss curves with the
	  same mean and variance as the scores of indivivuals belonging to
	  categories of several factors

2008-01-29 15:04  jthioulo

	* man/veuvage.Rd: Correstion of illegal accented character in
	  exemple code

2008-01-29 15:04  jthioulo

	* R/sco.qual.R: adds two functions: sco.gauss and sco.label (draw
	  Gauss curves on a score by categories of several factors)

2007-11-09 17:19  dray

	* R/newick2phylog.R: Correct a bug. In newick2phylog.addtools,
	  eigen does not return an orthogonal basis when there are null
	  eigenvalues (Wscores). Vectors are now orthogonalized using qr

2007-10-16 14:41  penel

	* DESCRIPTION: Change License to GPL (>=2)

2007-10-16 14:35  penel

	* ChangeLog: *** empty log message ***

2007-10-12 11:37  penel

	* ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-5
	  ----------

2007-10-11 15:50  penel

	* man/dunedata.Rd, man/steppe.Rd: Replace non_function by Doctype

2007-10-09 10:54  penel

	* src/testdim.c, src/tests.c: Correction of a bug in the
	  declaration of variables

2007-09-25 11:16  dray

	* ChangeLog: ---------- release of ade4 1.4-4 ----------

2007-09-25 11:10  dray

	* DESCRIPTION: ---------- release of ade4 1.4-4 ----------

2007-09-20 15:48  dray

	* R/coinertia.R, R/dudi.R, R/dudi.pco.R: Modification of the call
	  of the imported function chooseaxes for the use of the ade4TkGUI
	  package

2007-09-17 16:23  dray

	* R/within.pca.R, R/withinpca.R, man/ktab.Rd,
	  man/ktab.match2ktabs.Rd, man/pta.Rd, man/statis.Rd,
	  man/within.pca.Rd, man/withinpca.Rd: The function within.pca is
	  renamed withinpca

2007-09-17 15:12  dray

	* R/ktab.R, man/ktab.Rd: Change the names of the arguments of the
	  function '[.ktab'

2007-09-17 13:05  dray

	* man/amova.Rd, man/between.Rd, man/coinertia.Rd, man/corkdist.Rd,
	  man/discrimin.Rd, man/dpcoa.Rd, man/dudi.Rd, man/dudi.acm.Rd,
	  man/dudi.pco.Rd, man/foucart.Rd, man/is.euclid.Rd,
	  man/kplot.foucart.Rd, man/kplot.mcoa.Rd, man/kplot.mfa.Rd,
	  man/kplot.pta.Rd, man/kplot.sepan.Rd, man/kplot.statis.Rd,
	  man/krandtest.Rd, man/ktab.Rd, man/mcoa.Rd, man/mfa.Rd,
	  man/multispati.Rd, man/neig.Rd, man/niche.Rd, man/orthobasis.Rd,
	  man/pcaiv.Rd, man/phylog.Rd, man/plot.phylog.Rd, man/procuste.Rd,
	  man/pta.Rd, man/randtest.Rd, man/randtest.amova.Rd,
	  man/randtest.between.Rd, man/randtest.coinertia.Rd,
	  man/randtest.discrimin.Rd, man/reconst.Rd, man/rlq.Rd,
	  man/rtest.Rd, man/rtest.between.Rd, man/rtest.discrimin.Rd,
	  man/scatter.acm.Rd, man/scatter.coa.Rd, man/scatter.dudi.Rd,
	  man/scatter.fca.Rd, man/score.acm.Rd, man/score.coa.Rd,
	  man/score.mix.Rd, man/score.pca.Rd, man/sepan.Rd, man/statis.Rd,
	  man/supcol.Rd, man/suprow.Rd, man/testdim.Rd, man/within.Rd,
	  man/witwit.coa.Rd: Correct usage entries for S3 methods

2007-09-14 11:58  jthioulo

	* DESCRIPTION: suggests ade4TkGUI

2007-09-14 09:15  jthioulo

	* R/randtest.between.R: modif eval pour ne pas chercher dans
	  l'environnement global directement

2007-09-13 11:57  dray

	* src/Makevars: replace CRLF (DOS) by LF (Unix)

2007-09-13 11:18  jthioulo

	* R/coinertia.R, R/dudi.R, R/dudi.pco.R: modif pour variable
	  globale ade4TkGUIFlag

2007-09-06 17:08  dray

	* man/PI2newick.Rd, man/RV.rtest.Rd, man/RVdist.randtest.Rd,
	  man/aminoacyl.Rd, man/ardeche.Rd, man/area.plot.Rd,
	  man/as.taxo.Rd, man/atlas.Rd, man/atya.Rd, man/avijons.Rd,
	  man/aviurba.Rd, man/baran95.Rd, man/between.Rd,
	  man/bicenter.wt.Rd, man/buech.Rd, man/cailliez.Rd,
	  man/carni70.Rd, man/casitas.Rd, man/cca.Rd, man/chatcat.Rd,
	  man/chats.Rd, man/clementines.Rd, man/coinertia.Rd,
	  man/corkdist.Rd, man/discrimin.Rd, man/discrimin.coa.Rd,
	  man/dist.binary.Rd, man/dist.dudi.Rd, man/dist.genet.Rd,
	  man/dist.neig.Rd, man/dist.prop.Rd, man/dist.quant.Rd,
	  man/divcmax.Rd, man/dotchart.phylog.Rd, man/dotcircle.Rd,
	  man/doubs.Rd, man/dpcoa.Rd, man/dudi.Rd, man/dudi.acm.Rd,
	  man/dudi.coa.Rd, man/dudi.dec.Rd, man/dudi.fca.Rd,
	  man/dudi.mix.Rd, man/dudi.nsc.Rd, man/dudi.pca.Rd,
	  man/dudi.pco.Rd, man/escopage.Rd, man/euro123.Rd, man/fruits.Rd,
	  man/fuzzygenet.Rd, man/gearymoran.Rd, man/genet.Rd,
	  man/granulo.Rd, man/gridrowcol.Rd, man/ichtyo.Rd,
	  man/inertia.dudi.Rd, man/is.euclid.Rd, man/julliot.Rd,
	  man/jv73.Rd, man/kdist.Rd, man/kdist2ktab.Rd, man/kdisteuclid.Rd,
	  man/kplot.foucart.Rd, man/kplot.mcoa.Rd, man/kplot.mfa.Rd,
	  man/kplot.pta.Rd, man/kplot.sepan.Rd, man/kplot.statis.Rd,
	  man/ktab.Rd, man/ktab.data.frame.Rd, man/ktab.list.df.Rd,
	  man/ktab.list.dudi.Rd, man/ktab.match2ktabs.Rd,
	  man/ktab.within.Rd, man/lascaux.Rd, man/lingoes.Rd, man/macon.Rd,
	  man/mafragh.Rd, man/mantel.rtest.Rd, man/mariages.Rd,
	  man/mcoa.Rd, man/meau.Rd, man/meaudret.Rd, man/mfa.Rd,
	  man/microsatt.Rd, man/mjrochet.Rd, man/mld.Rd, man/mollusc.Rd,
	  man/monde84.Rd, man/morphosport.Rd, man/mstree.Rd,
	  man/multispati.Rd, man/multispati.randtest.Rd,
	  man/multispati.rtest.Rd, man/neig.Rd, man/newick.eg.Rd,
	  man/newick2phylog.Rd, man/niche.Rd, man/njplot.Rd,
	  man/orthobasis.Rd, man/orthogram.Rd, man/ours.Rd, man/palm.Rd,
	  man/pcaiv.Rd, man/pcaivortho.Rd, man/pcoscaled.Rd, man/phylog.Rd,
	  man/plot.phylog.Rd, man/procuste.Rd, man/procuste.rtest.Rd,
	  man/pta.Rd, man/quasieuclid.Rd, man/reconst.Rd, man/rhone.Rd,
	  man/rpjdl.Rd, man/rtest.Rd, man/rtest.between.Rd,
	  man/rtest.discrimin.Rd, man/s.arrow.Rd, man/s.chull.Rd,
	  man/s.class.Rd, man/s.corcircle.Rd, man/s.distri.Rd,
	  man/s.hist.Rd, man/s.image.Rd, man/s.kde2d.Rd, man/s.label.Rd,
	  man/s.logo.Rd, man/s.match.Rd, man/s.multinom.Rd,
	  man/s.traject.Rd, man/s.value.Rd, man/sarcelles.Rd,
	  man/scalewt.Rd, man/scatter.Rd, man/scatter.acm.Rd,
	  man/scatter.coa.Rd, man/scatter.dudi.Rd, man/scatter.fca.Rd,
	  man/sco.boxplot.Rd, man/sco.distri.Rd, man/sco.quant.Rd,
	  man/score.Rd, man/score.acm.Rd, man/score.coa.Rd,
	  man/score.mix.Rd, man/score.pca.Rd, man/sepan.Rd, man/statis.Rd,
	  man/steppe.Rd, man/supcol.Rd, man/suprow.Rd,
	  man/symbols.phylog.Rd, man/t3012.Rd, man/table.cont.Rd,
	  man/table.dist.Rd, man/table.paint.Rd, man/table.phylog.Rd,
	  man/table.value.Rd, man/tarentaise.Rd, man/triangle.class.Rd,
	  man/triangle.plot.Rd, man/trichometeo.Rd, man/ungulates.Rd,
	  man/uniquewt.df.Rd, man/variance.phylog.Rd, man/veuvage.Rd,
	  man/westafrica.Rd, man/within.Rd, man/within.pca.Rd,
	  man/witwit.coa.Rd, man/worksurv.Rd: Added the encoding of Rd
	  files and remove the email of Daniel Chessel (he is retired)

2007-09-06 15:11  dray

	* R/scatter.acm.R: Clean R files: replace T by TRUE.

2007-09-06 15:03  dray

	* R/newick2phylog.R: Clean R files: remove multiple function
	  definitions (floc1(s) becomes floc1,floc2,floc3. Thanks to
	  UsagePackageCheck of codetools

2007-09-06 14:55  dray

	* R/multispati.R, R/multispati.randtest.R, R/multispati.rtest.R,
	  R/neig.R, R/orthobasis.R, R/s.image.R, R/s.kde2d.R, R/s.logo.R:
	  Clean R files: correct imported function definition. Thanks to
	  UsagePackageCheck of codetools

2007-09-06 13:53  dray

	* R/orthogram.R: Correct a bug: test for the choice between
	  orthobas, neig or phylog

2007-09-06 12:21  dray

	* R/scatter.acm.R: Correct a bug: replace score. by score.acm

2007-09-06 12:19  dray

	* R/kplot.foucart.R, R/kplot.mfa.R, R/mcoa.R, R/rlq.R,
	  R/score.coa.R, R/sepan.R, R/variance.phylog.R: Clean R files:
	  remove local variables assigned but not used. Thanks to
	  checkUsagePackage of codetools

2007-09-06 11:58  dray

	* R/PI2newick.R, R/RV.rtest.R, R/RVdist.randtest.R, R/amova.R,
	  R/area.plot.R, R/as.taxo.R, R/between.R, R/coinertia.R,
	  R/corkdist.R, R/disc.R, R/discrimin.R, R/discrimin.coa.R,
	  R/dist.dudi.R, R/dist.genet.R, R/dotcircle.R, R/dudi.coa.R,
	  R/dudi.dec.R, R/dudi.nsc.R, R/foucart.R, R/fuzzygenet.R,
	  R/genet.R, R/gridrowcol.R, R/kplot.foucart.R, R/kplot.mfa.R,
	  R/kplot.statis.R, R/ktab.R, R/ktab.list.dudi.R,
	  R/ktab.match2ktabs.R, R/ktab.within.R, R/lingoes.R, R/mcoa.R,
	  R/mld.R, R/multispati.R, R/newick2phylog.R, R/niche.R,
	  R/optimEH.R, R/orthobasis.R, R/orthogram.R, R/pcaiv.R,
	  R/phylog.R, R/plot.phylog.R, R/procuste.R, R/rlq.R,
	  R/rtest.between.R, R/s.corcircle.R, R/s.hist.R, R/s.image.R,
	  R/scatter.R, R/sco.distri.R, R/score.acm.R, R/score.coa.R,
	  R/score.mix.R, R/sepan.R, R/statis.R, R/symbols.phylog.R,
	  R/table.cont.R, R/table.phylog.R, R/uniquewt.df.R,
	  R/variance.phylog.R, R/within.R, R/within.pca.R: Clean R files:
	  remove local variables assigned but not used. Thanks to
	  checkUsagePackage of codetools

2007-09-06 08:08  dray

	* man/bordeaux.Rd, man/cca.Rd, man/dudi.hillsmith.Rd,
	  man/elec88.Rd, man/seconde.Rd: Clean Rd files: remove unmatched
	  right brace

2007-09-04 16:12  dray

	* R/testdim.R, man/testdim.Rd, src/Makevars, src/testdim.c: New
	  function testdim to estimate the number of axes in multivariate
	  analysis

2007-09-04 15:07  dray

	* R/gearymoran.R, R/krandtest.R, R/niche.R, R/orthogram.R,
	  R/randtest.amova.R, man/gearymoran.Rd, man/krandtest.Rd,
	  man/niche.Rd, man/orthogram.Rd: reimplementation of the class
	  krandtest and new function as.krandtest

2007-09-04 14:50  dray

	* man/vegtf.Rd: correction of a bug in the example section

2007-09-03 16:53  dray

	* R/score.coa.R, man/score.coa.Rd: new function reciprocal.coa (see
	  http://listes.univ-lyon1.fr/wws/arc/adelist/2007-07/msg00007.html)

2007-09-03 16:26  dray

	* R/sco.distri.R, man/sco.distri.Rd: sco.distri returns a
	  data.frame with means and variances (see
	  http://listes.univ-lyon1.fr/wws/arc/adelist/2007-06/msg00018.html)

2007-09-03 15:24  dray

	* R/scatter.R, R/sepan.R, R/witwitsepan.R: Add yaxt argument to
	  scatterutil.eigen (see
	  http://listes.univ-lyon1.fr/wws/arc/adelist/2007-07/msg00022.html)

2007-09-03 15:04  dray

	* R/multispati.R: Correct legend in plot.multispati

2007-09-03 14:58  dray

	* data/vegtf.rda, man/vegtf.Rd: New vegetation data set to
	  illustrate multispati analysis

2007-09-03 14:51  dray

	* R/niche.R, man/niche.Rd: New functions niche.param and
	  rtest.niche

2007-08-29 16:20  dray

	* R/area.plot.R: the function area2poly is modified to export the
	  bbox attribute for each polygon

2007-08-29 16:00  dray

	* R/s.corcircle.R: correct bug of the grid argument. see
	  http://listes.univ-lyon1.fr/wws/arc/adelist/2007-07/msg00001.html

2007-08-29 15:47  dray

	* R/randtest-internal.R, R/rlq.R: correct bugs in memory allocation
	  (C interface). These bugs have been identified using valgrind by
	  B. Ripley (12/06/2007)

2007-06-15 07:49  dray

	* man/dunedata.Rd: correct the number of rows and columns in the
	  help file

2007-04-16 12:56  dray

	* ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-3
	  ----------

2007-04-12 13:39  dray

	* man/suprow.Rd: correct the example section

2007-04-12 13:08  dray

	* ChangeLog: New ChangeLog

2007-04-12 12:58  dray

	* data/atlas.rda, data/avijons.rda, data/aviurba.rda,
	  data/baran95.rda, data/bf88.rda, data/chevaine.rda,
	  data/cnc2003.rda, data/elec88.rda, data/monde84.rda,
	  data/rankrock.rda, data/rpjdl.rda, data/sarcelles.rda,
	  data/steppe.rda, data/t3012.rda, data/tarentaise.rda,
	  data/veuvage.rda, data/westafrica.rda: remove non ASCII
	  characters in data

2007-03-26 16:47  jombart

	* ChangeLog, R/dudi.pco.R: reviewed by: <delete if not using a
	  buddy>
	  * R/dudi.pco.R: sub and csub arguments are now actually passed to
	  s.label

2007-03-12 14:34  jombart

	* ChangeLog, R/add.scatter.R, man/add.scatter.Rd, man/scatter.Rd: *
	  R/scatter.R: removed add.scatter.eig
	  * man/scatter.Rd: removed add.scatter.eig
	  * R/add.scatter.R: new functions add.scatter and add.scatter.eig
	  * man/add.scatter.Rd: doc for add.scatter and add.scatter.eig

2007-03-12 14:27  jombart

	* R/scatter.add.R, man/scatter.add.Rd: *** empty log message ***

2007-03-12 14:06  jombart

	* ChangeLog, R/add.graph.R: reviewed by: <delete if not using a
	  buddy>
	  * R/add.graph.R:
	  * R/dpcoa.R:
	  * R/dudi.pco.R:
	  * R/kplot.sepan.R:
	  * R/mfa.R:
	  * R/pta.R:
	  * R/scatter.R:
	  * R/scatter.add.R:
	  * R/scatter.coa.R:
	  * R/scatter.dudi.R:
	  * R/statis.R:
	  * man/scatter.Rd:
	  * man/scatter.add.Rd:

2007-03-12 14:04  jombart

	* ChangeLog, R/dpcoa.R, R/dudi.pco.R, R/kplot.sepan.R, R/mfa.R,
	  R/pta.R, R/scatter.R, R/scatter.add.R, R/scatter.coa.R,
	  R/scatter.dudi.R, R/statis.R, man/add.graph.Rd, man/scatter.Rd,
	  man/scatter.add.Rd: reviewed by: <delete if not using a buddy>
	  * R/dpcoa.R:
	  * R/dudi.pco.R:
	  * R/kplot.sepan.R:
	  * R/mfa.R:
	  * R/pta.R:
	  * R/scatter.R:
	  * R/scatter.add.R:
	  * R/scatter.coa.R:
	  * R/scatter.dudi.R:
	  * R/statis.R:
	  * man/add.graph.Rd:
	  * man/scatter.Rd:
	  * man/scatter.add.Rd:

2007-03-10 10:38  jombart

	* ChangeLog, R/add.graph.R, R/dpcoa.R, R/dudi.pco.R,
	  R/kplot.sepan.R, R/mfa.R, R/pta.R, R/scatter.R, R/scatter.coa.R,
	  R/scatter.dudi.R, R/statis.R, man/add.graph.Rd, man/dudi.pca.Rd,
	  man/scatter.Rd, man/scatter.dudi.Rd: reviewed by: <delete if not
	  using a buddy>
	  * R/add.graph.R: ajout de la fonction (contient add.graph et la
	  nouvelle version de add.scatter.eig)
	  * man/add.graph.Rd: ajout de la doc (add.graph et
	  add.scatter.eig)
	  * R/dpcoa.R: appel de add.scatter.eig: nf supprime
	  * R/dudi.pco.R: appel de add.scatter.eig: nf supprime
	  * R/kplot.sepan.R: appel de add.scatter.eig: nf supprime
	  * R/mfa.R: appel de add.scatter.eig: nf supprime
	  * R/pta.R: appel de add.scatter.eig: nf supprime
	  * R/scatter.R: add.scatter.eig supprime (migre vers add.graph.R)
	  * R/scatter.coa.R: appel de add.scatter.eig: nf supprime
	  * R/scatter.dudi.R: appel de add.scatter.eig: nf supprime
	  * R/statis.R: appel de add.scatter.eig: nf supprime
	  * man/dudi.pca.Rd: modifications faites par Anne
	  * man/scatter.Rd: enleve add.scatter.eig de la doc (migre vers
	  add.graph.Rd)
	  * man/scatter.dudi.Rd: appel de add.scatter.eig: nf supprime

2007-03-07 18:46  jombart

	* ChangeLog, data/rpjdl.rda: reviewed by: <delete if not using a
	  buddy>
	  * data/rpjdl.rda: removed accents

2007-02-19 09:53  jthioulo

	* ChangeLog, R/s.arrow.R, man/s.arrow.Rd: * R/s.arrow.R: added the
	  "boxes" argument
	  * man/s.arrow.Rd: added the "boxes" argument

2007-02-16 09:13  dray

	* ChangeLog, man/orthogram.Rd: * man/orthogram.Rd: update the
	  reference to Ollier et al.