[med-svn] r22233 - trunk/packages/R/r-cran-adegenet/trunk/debian

[Andreas Tille]

Author: tille
Date: 2016-06-28 13:16:25 +0000 (Tue, 28 Jun 2016)
New Revision: 22233

Added:
   trunk/packages/R/r-cran-adegenet/trunk/debian/README.source
Modified:
   trunk/packages/R/r-cran-adegenet/trunk/debian/README.test
Log:
Document binary data files


Added: trunk/packages/R/r-cran-adegenet/trunk/debian/README.source
===================================================================
--- trunk/packages/R/r-cran-adegenet/trunk/debian/README.source	                        (rev 0)
+++ trunk/packages/R/r-cran-adegenet/trunk/debian/README.source	2016-06-28 13:16:25 UTC (rev 22233)
@@ -0,0 +1,66 @@
+Explanation for binary files inside source package according to
+  http://lists.debian.org/debian-devel/2013/09/msg00332.html
+
+Files: data/H3N2.rda
+Documentation: man/H3N2.Rd
+ Seasonal influenza (H3N2) HA segment data
+ These data were gathered from DNA sequences available from
+ Genbank (http://www.ncbi.nlm.nih.gov/Genbank/)
+
+Files: data/dapcIllus.rda
+Documentation: man/dapcIllus.Rd
+ Simulated data illustrating the DAPC
+ Jombart, T., Devillard, S. and Balloux, F.: "Discriminant analysis of
+ principal components: a new method for the analysis of genetically
+ structured populations.", BMC genetics
+
+Files: data/eHGDP.rda
+Documentation: man/eHGDP.Rd
+ Extended HGDP-CEPH dataset
+ Wang S, Lewis CM, Jakobsson M, Ramachandran S, Ray N, et al.
+ "Genetic Variation and Population Structure in Native Americans"
+ PLoS Genetics, 2007 3: e185.
+ .
+ This copy of the dataset was prepared by Francois Balloux.
+
+Files: data/microbov.rda
+Documentation: man/microbov.Rd
+ Microsatellites genotypes of 15 cattle breeds
+ Data prepared by Katayoun Moazami-Goudarzi and Denis Laloë (INRA,
+ Jouy-en-Josas, France)
+
+Files: data/nancycats.rda
+Documentation: man/nancycats.Rd
+ Microsatellites genotypes of 237 cats from 17 colonies of Nancy (France)
+ Dominique Pontier (UMR CNRS 5558, University Lyon1, France)
+
+Files: data/rupica.rda
+Documentation: man/rupica.Rd
+ Microsatellites genotypes of 335 chamois (Rupicapra rupicapra) from the
+ Bauges mountains (France)
+ Daniel Maillard, 'Office National de la Chasse et de la Faune
+ Sauvage' (ONCFS), France.
+
+Files: data/sim2pop.rda
+Documentation: man/sim2pop.Rd
+ Simulated genotypes of two georeferenced populations
+ Easypop version 2.0.1 was run with the following parameters:
+   - two diploid populations, one sex, random mating
+   - 1000 individuals per population
+   - proportion of migration: 0.002
+   - 20 loci
+   - mutation rate: 0.0001 (KAM model)
+   - maximum of 50 allelic states
+   - 1000 generations (last one taken)
+
+Files: data/spcaIllus.rda
+Documentation: man/spcaIllus.Rd
+ Simulated data illustrating the sPCA
+ Jombart, T., Devillard, S., Dufour, A.-B. and Pontier, D.
+ Revealing cryptic spatial patterns in genetic variability by a new
+ multivariate method.
+ Heredity, 101, 92-103
+
+ -- Andreas Tille <tille at debian.org>  Tue, 28 Jun 2016 14:57:24 +0200
+
+

Modified: trunk/packages/R/r-cran-adegenet/trunk/debian/README.test
===================================================================
--- trunk/packages/R/r-cran-adegenet/trunk/debian/README.test	2016-06-28 12:55:02 UTC (rev 22232)
+++ trunk/packages/R/r-cran-adegenet/trunk/debian/README.test	2016-06-28 13:16:25 UTC (rev 22233)
@@ -3,7 +3,6 @@
 
 This package can be tested by running the provided test:
 
-cd tests
-LC_ALL=C R --no-save < testthat.R
+   sh ./run-unit-test
 
 in order to confirm its integrity.