[r-cran-bayesfactor] 01/01: Added debian/ directory
Jonathon Love
jon at thon.cc
Thu Sep 24 20:33:47 UTC 2015
This is an automated email from the git hooks/post-receive script.
jonathon-guest pushed a commit to branch master
in repository r-cran-bayesfactor.
commit d2d8a873dccc951ec2c1f5a758966d8818ce7772
Author: Jonathon Love <jon at thon.cc>
Date: Thu Sep 24 22:33:42 2015 +0200
Added debian/ directory
---
debian/README.source | 25 ++++
debian/README.test | 11 ++
debian/changelog | 6 +
debian/compat | 1 +
debian/control | 43 +++++++
debian/copyright | 268 +++++++++++++++++++++++++++++++++++++++
debian/docs | 3 +
debian/patches/series | 1 +
debian/patches/use-local-mathjax | 60 +++++++++
debian/rules | 4 +
debian/source/format | 1 +
debian/tests/control | 3 +
debian/tests/run-unit-test | 20 +++
debian/watch | 3 +
14 files changed, 449 insertions(+)
diff --git a/debian/README.source b/debian/README.source
new file mode 100644
index 0000000..97d787a
--- /dev/null
+++ b/debian/README.source
@@ -0,0 +1,25 @@
+Explanation for binary files inside source package according to
+ http://lists.debian.org/debian-devel/2013/09/msg00332.html
+
+This package contains the following data sets
+
+Files: data/puzzles.rda
+Documentation: man/puzzles.Rd
+ Example data set:
+ Puzzle completion times from Hays (1994)
+ Hays (1994; section 13.21, table 13.21.2, p. 570) describes an experiment
+ wherein 12 participants complete four puzzles each. Puzzles could be either
+ square or round, and either monochromatic or in color. Each participant
+ completed every combination of the two factors.
+
+Files: data/raceDolls.rda
+Documentation: man/raceDolls.Rd
+ Example data set:
+ Hraba and Grant (1970) describe a replication of Clark and Clark (1947) in
+ which black and white children from Lincoln, Nebraska were shown dolls that
+ were either black or white. They were then asked a series of questions,
+ including "Give me the doll that is a nice doll." This data set contains the
+ frequency of children giving the same-race or different race doll in response
+ to this question.
+
+
diff --git a/debian/README.test b/debian/README.test
new file mode 100644
index 0000000..4718064
--- /dev/null
+++ b/debian/README.test
@@ -0,0 +1,11 @@
+Notes on how this package can be tested.
+────────────────────────────────────────
+
+These tests require that the r-cran-testthat package is installed
+
+To run the unit tests provided by the package you can do
+
+ sh run-unit-test
+
+in this directory.
+
diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..625267d
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,6 @@
+r-cran-bayesfactor (0.9.12-2-1) unstable; urgency=low
+
+ * Initial release. (Closes: #797820)
+
+ -- Jonathon Love <jon at thon.cc> Mon, 14 Sep 2015 20:34:32 +0200
+
diff --git a/debian/compat b/debian/compat
new file mode 100644
index 0000000..ec63514
--- /dev/null
+++ b/debian/compat
@@ -0,0 +1 @@
+9
diff --git a/debian/control b/debian/control
new file mode 100644
index 0000000..4d79d9e
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,43 @@
+Source: r-cran-bayesfactor
+Maintainer: Debian Science Maintainers <debian-science-maintainers at lists.alioth.debian.org>
+Uploaders: Jonathon Love <jon at thon.cc>
+Section: gnu-r
+Priority: optional
+Build-Depends: debhelper (>= 9),
+ cdbs,
+ r-base-dev,
+ r-cran-coda,
+ r-cran-matrix,
+ r-cran-pbapply,
+ r-cran-mvtnorm,
+ r-cran-stringr,
+ r-cran-gtools,
+ r-cran-matrixmodels,
+ r-cran-rcpp,
+ r-cran-rcppeigen
+Standards-Version: 3.9.6
+Vcs-Browser: https://anonscm.debian.org/cgit/debian-science/packages/r-cran-bayesfactor.git
+Vcs-Git: git://anonscm.debian.org/debian-science/packages/r-cran-bayesfactor.git
+Homepage: http://bayesfactorpcl.r-forge.r-project.org/
+
+Package: r-cran-bayesfactor
+Architecture: any
+Depends: ${R:Depends},
+ ${shlibs:Depends},
+ ${misc:Depends},
+ r-base,
+ r-cran-coda,
+ r-cran-matrix,
+ r-cran-pbapply,
+ r-cran-mvtnorm,
+ r-cran-stringr,
+ r-cran-gtools,
+ r-cran-matrixmodels,
+ r-cran-rcpp,
+ r-cran-rcppeigen,
+ libjs-mathjax
+Description: GNU R package providing Bayes factors for t-tests, ANOVAs and contingency tables
+ r-cran-bayesfactor is a GNU R package providing a suite of functions for
+ computing various Bayes factors for simple designs, including
+ contingency tables, one- and two-sample designs, one- way designs,
+ general ANOVA designs, and linear regression.
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..96f452c
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,268 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: BayesFactor
+Upstream-Contact: Richard D. Morey <richarddmorey at gmail.com>
+Source: http://cran.r-project.org/web/packages/BayesFactor
+
+Files: *
+Copyright: 2012-2015 Richard D. Morey, Jeffrey N. Rouder, Tahira Jamil
+License: GPL-2
+
+Files: vignettes/extra/socialmedia/*
+Copyright: 2015 Lokas Software
+License: CC-BY-3.0
+
+Files: debian/*
+Copyright: 2015 Jonathon Love <jon at thon.cc>
+License: GPL-2
+
+License: GPL-2
+ This program is free software; you can redistribute it
+ and/or modify it under the terms of the GNU General Public
+ License as published by the Free Software Foundation;
+ version 2.
+ .
+ This program is distributed in the hope that it will be
+ useful, but WITHOUT ANY WARRANTY; without even the implied
+ warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the GNU General Public License for more
+ details.
+ .
+ You should have received a copy of the GNU General Public
+ License along with this package; if not, write to the Free
+ Software Foundation, Inc., 51 Franklin St, Fifth Floor,
+ Boston, MA 02110-1301 USA
+ .
+ On Debian systems, the full text of the GNU General Public
+ License version 2 can be found in the file
+ `/usr/share/common-licenses/GPL-2'.
+
+License: CC-BY-3.0
+ THE WORK (AS DEFINED BELOW) IS PROVIDED UNDER THE TERMS OF THIS CREATIVE
+ COMMONS PUBLIC LICENSE ("CCPL" OR "LICENSE"). THE WORK IS PROTECTED BY
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+ AUTHORIZED UNDER THIS LICENSE OR COPYRIGHT LAW IS PROHIBITED.
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diff --git a/debian/docs b/debian/docs
new file mode 100644
index 0000000..3adf0d6
--- /dev/null
+++ b/debian/docs
@@ -0,0 +1,3 @@
+debian/README.test
+debian/tests/run-unit-test
+tests
diff --git a/debian/patches/series b/debian/patches/series
new file mode 100644
index 0000000..5d4eb1a
--- /dev/null
+++ b/debian/patches/series
@@ -0,0 +1 @@
+use-local-mathjax
diff --git a/debian/patches/use-local-mathjax b/debian/patches/use-local-mathjax
new file mode 100644
index 0000000..8917ee8
--- /dev/null
+++ b/debian/patches/use-local-mathjax
@@ -0,0 +1,60 @@
+
+From: Jonathon Love <jon at thon.cc>
+
+Description: MathJax <script>'s are now loaded locally, not from remote
+ Fixes privacy-breach-uses-embedded-file lintian error
+
+Author: Jonathon Love <jon at thon.cc>
+
+Index: r-cran-bayesfactor/inst/doc/compare_lme4.html
+===================================================================
+--- r-cran-bayesfactor.orig/inst/doc/compare_lme4.html
++++ r-cran-bayesfactor/inst/doc/compare_lme4.html
+@@ -58,7 +58,7 @@ hljs.initHighlightingOnLoad();
+ </script>
+
+ <!-- MathJax scripts -->
+-<script type="text/javascript" src="https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML">
++<script type="text/javascript" src="file:///usr/share/javascript/mathjax/MathJax.js">
+ </script>
+
+
+Index: r-cran-bayesfactor/inst/doc/manual.html
+===================================================================
+--- r-cran-bayesfactor.orig/inst/doc/manual.html
++++ r-cran-bayesfactor/inst/doc/manual.html
+@@ -58,7 +58,7 @@ hljs.initHighlightingOnLoad();
+ </script>
+
+ <!-- MathJax scripts -->
+-<script type="text/javascript" src="https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML">
++<script type="text/javascript" src="file:///usr/share/javascript/mathjax/MathJax.js">
+ </script>
+
+
+Index: r-cran-bayesfactor/inst/doc/odds_probs.html
+===================================================================
+--- r-cran-bayesfactor.orig/inst/doc/odds_probs.html
++++ r-cran-bayesfactor/inst/doc/odds_probs.html
+@@ -58,7 +58,7 @@ hljs.initHighlightingOnLoad();
+ </script>
+
+ <!-- MathJax scripts -->
+-<script type="text/javascript" src="https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML">
++<script type="text/javascript" src="file:///usr/share/javascript/mathjax/MathJax.js">
+ </script>
+
+
+Index: r-cran-bayesfactor/inst/doc/priors.html
+===================================================================
+--- r-cran-bayesfactor.orig/inst/doc/priors.html
++++ r-cran-bayesfactor/inst/doc/priors.html
+@@ -58,7 +58,7 @@ hljs.initHighlightingOnLoad();
+ </script>
+
+ <!-- MathJax scripts -->
+-<script type="text/javascript" src="https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML">
++<script type="text/javascript" src="file:///usr/share/javascript/mathjax/MathJax.js">
+ </script>
+
+
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..935f37f
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,4 @@
+#!/usr/bin/make -f
+
+include /usr/share/R/debian/r-cran.mk
+
diff --git a/debian/source/format b/debian/source/format
new file mode 100644
index 0000000..163aaf8
--- /dev/null
+++ b/debian/source/format
@@ -0,0 +1 @@
+3.0 (quilt)
diff --git a/debian/tests/control b/debian/tests/control
new file mode 100644
index 0000000..d2aa55a
--- /dev/null
+++ b/debian/tests/control
@@ -0,0 +1,3 @@
+Tests: run-unit-test
+Depends: @
+Restrictions: allow-stderr
diff --git a/debian/tests/run-unit-test b/debian/tests/run-unit-test
new file mode 100644
index 0000000..6ce3955
--- /dev/null
+++ b/debian/tests/run-unit-test
@@ -0,0 +1,20 @@
+#!/bin/sh -e
+
+pkg=r-cran-bayesfactor
+
+if [ "$ADTTMP" = "" ] ; then
+ ADTTMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
+fi
+cd $ADTTMP
+cp -a /usr/share/doc/${pkg}/tests/* $ADTTMP
+
+for runtest in `ls *.R` ; do
+ LC_ALL=C R --no-save < $runtest >/dev/null
+ if [ ! $? ] ; then
+ echo "Test ${runtest} failed"
+ exit 1
+ else
+ echo "Test ${runtest} passed"
+ fi
+done
+rm -rf $ADTTMP/*
diff --git a/debian/watch b/debian/watch
new file mode 100644
index 0000000..d6046f3
--- /dev/null
+++ b/debian/watch
@@ -0,0 +1,3 @@
+version=3
+http://cran.r-project.org/src/contrib/BayesFactor_([\d\.-]*).tar.gz
+
--
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