[med-svn] [SCM] r-cran-proto branch, master, updated. debian/0.3-9.2-1-12-g9fd7889
Charles Plessy
plessy at debian.org
Thu Apr 4 05:19:44 UTC 2013
The following commit has been merged in the master branch:
commit 3dd4a5275c921206f8066d7e05597fb76a3372da
Author: Charles Plessy <plessy at debian.org>
Date: Thu Apr 4 13:47:33 2013 +0900
Imported Upstream version 0.3-10
diff --git a/DESCRIPTION b/DESCRIPTION
index 9ca5361..414259f 100755
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,6 +1,6 @@
Package: proto
-Version: 0.3-9.2
-Date: 2011-04-27
+Version: 0.3-10
+Date: 2012-12-21
Title: Prototype object-based programming
Author: Louis Kates, Thomas Petzoldt
Maintainer: Gabor Grothendieck <ggrothendieck at gmail.com>
@@ -9,6 +9,6 @@ Description: An object oriented system using object-based, also called
Suggests: graph, Rgraphviz
License: GPL-2
URL: http://r-proto.googlecode.com
-Packaged: 2011-04-29 01:24:33 UTC; Louis
+Packaged: 2012-12-22 16:03:20 UTC; Louis
Repository: CRAN
-Date/Publication: 2011-04-29 04:39:19
+Date/Publication: 2012-12-22 21:51:44
diff --git a/MD5 b/MD5
index 7917614..24f3849 100644
--- a/MD5
+++ b/MD5
@@ -1,6 +1,7 @@
46aaf69a91703493b666f212a04f2d8d *COPYING
f1b835a71d977b89a230f0e4f99dd90d *COPYRIGHTS
-75c7e34681acc25d430f65b0f1f2056a *DESCRIPTION
+cb34824dbd8ef8d6dd5d2f4bdc3fcd1a *DESCRIPTION
+09754c9bb5e1c4827329a9e0ba97b396 *NAMESPACE
42c1cfc8132441d8265761c8043556ff *R/graph.proto.R
c1123ff65baf22a8a7ff44e5d6801a00 *R/proto.R
6037abe3a5b93273e226787815fef835 *README.debian
@@ -8,34 +9,35 @@ c1123ff65baf22a8a7ff44e5d6801a00 *R/proto.R
ceeaf4410099f287e2270fc78818cecf *demo/proto-vignette.R
753a9fadec704a3bbbdf33acb55b74cc *demo/proto.R
389be8e7c57d3814674707a35c692459 *inst/FAQ
-e84a7389931e2f90ed19811573d793d4 *inst/NEWS
+5955a48859befe932beb3b7785404f21 *inst/NEWS
6cfcfccaa048fc8ee56ea2643b8db12e *inst/README
24576b9372c63525afb6e103f7380a7c *inst/THANKS
7ecc08fce7089dad44f647b8bfb1434a *inst/WISHLIST
-681237a1b1290f1e6fc93667591a7865 *inst/doc/README
-954ced282c02125db098edbb5bf7d147 *inst/doc/Z.cls
-ec6063dd71e4a60916a310e810b72686 *inst/doc/cloning3.dot
-d64eff73ca94aa8d8e23eb2bfa69fd86 *inst/doc/cloning3.pdf
-0ed6143f12316644bcd3b499d5ecbbac *inst/doc/jss.bst
-186a0c34001100a81c27bf519c81edb2 *inst/doc/proto-dot.pdf
-bfce81e7eaa5cf3d01dae6f9964aeab5 *inst/doc/proto-dot.tex
-3fbe78134c2dd817cb585b9218574c61 *inst/doc/proto-raw
-2ee13f271faa022648600c5f3736cb83 *inst/doc/proto-raw.tex
-e8904de6669701e6c252964f8ef7ad0b *inst/doc/proto-smoothing03.pdf
-1320f930222ba5b29e84f9321891b280 *inst/doc/proto-smoothing03.tex
-ef781a3c343efd0e19283aea096a4e55 *inst/doc/proto-smoothing04.pdf
-fdc0cf82a3583a4debfebcf2f66531c3 *inst/doc/proto-smoothing04.tex
-5819b82ae7b1fac31abac5014ad8cafb *inst/doc/proto-smoothing06.pdf
-3b65082f7e4b40eda30d384124125fde *inst/doc/proto-smoothing06.tex
-b1e193bbfee964291660ff1cdd26c284 *inst/doc/proto-smoothing10.pdf
-383ef6322b693e859795cecaa29390c4 *inst/doc/proto-smoothing10.tex
bca490c5de076ff9b93c69255f317f4a *inst/doc/proto.Rnw
-7ad5d41f758d4792ef9c3a4bcfbe32da *inst/doc/proto.bib
-a614ab3306cdd6d9c875e7c512e7be3b *inst/doc/proto.pdf
-1cc3d874f03f7073b3935825054775bf *inst/doc/proto.tex
-a3ca93bf6e5afe69e729381c44c14a4c *inst/doc/protoref-raw.tex
+7b2b24726d56bbc93494e400bf7d030f *inst/doc/proto.pdf
4273f3c74b47222ea69a1b08438a821f *inst/doc/protoref.Rnw
-135674dacc16f75dbd8247644015a3e1 *inst/doc/protoref.pdf
+1b706daf7d2b28e24331627a8a68a53c *inst/doc/protoref.pdf
a78c61ae7a81202d3a8ac767c0b57a42 *man/graph.proto.Rd
e1efd10e8444a7473c04328576a7a5ea *man/proto-package.Rd
00d697562783af865d8c4558aef8852c *man/proto.Rd
+681237a1b1290f1e6fc93667591a7865 *vignettes/README
+954ced282c02125db098edbb5bf7d147 *vignettes/Z.cls
+ec6063dd71e4a60916a310e810b72686 *vignettes/cloning3.dot
+d64eff73ca94aa8d8e23eb2bfa69fd86 *vignettes/cloning3.pdf
+186a0c34001100a81c27bf519c81edb2 *vignettes/proto-dot.pdf
+bfce81e7eaa5cf3d01dae6f9964aeab5 *vignettes/proto-dot.tex
+3fbe78134c2dd817cb585b9218574c61 *vignettes/proto-raw
+2ee13f271faa022648600c5f3736cb83 *vignettes/proto-raw.tex
+e8904de6669701e6c252964f8ef7ad0b *vignettes/proto-smoothing03.pdf
+1320f930222ba5b29e84f9321891b280 *vignettes/proto-smoothing03.tex
+ef781a3c343efd0e19283aea096a4e55 *vignettes/proto-smoothing04.pdf
+fdc0cf82a3583a4debfebcf2f66531c3 *vignettes/proto-smoothing04.tex
+5819b82ae7b1fac31abac5014ad8cafb *vignettes/proto-smoothing06.pdf
+3b65082f7e4b40eda30d384124125fde *vignettes/proto-smoothing06.tex
+b1e193bbfee964291660ff1cdd26c284 *vignettes/proto-smoothing10.pdf
+383ef6322b693e859795cecaa29390c4 *vignettes/proto-smoothing10.tex
+bca490c5de076ff9b93c69255f317f4a *vignettes/proto.Rnw
+7ad5d41f758d4792ef9c3a4bcfbe32da *vignettes/proto.bib
+1cc3d874f03f7073b3935825054775bf *vignettes/proto.tex
+a3ca93bf6e5afe69e729381c44c14a4c *vignettes/protoref-raw.tex
+4273f3c74b47222ea69a1b08438a821f *vignettes/protoref.Rnw
diff --git a/NAMESPACE b/NAMESPACE
new file mode 100755
index 0000000..a77f192
--- /dev/null
+++ b/NAMESPACE
@@ -0,0 +1 @@
+exportPattern(".")
diff --git a/inst/NEWS b/inst/NEWS
index 1450e73..d6ac92b 100755
--- a/inst/NEWS
+++ b/inst/NEWS
@@ -1,4 +1,10 @@
+VERSION 0.3-10
+
+o added NAMESPACE file
+
+o removed junk files
+
VERSION 0.3-9.2
o fixed bug in print.instantiatedProtoMethod
diff --git a/inst/doc/jss.bst b/inst/doc/jss.bst
deleted file mode 100755
index 647ee5c..0000000
--- a/inst/doc/jss.bst
+++ /dev/null
@@ -1,1620 +0,0 @@
-%%
-%% This is file `jss.bst',
-%% generated with the docstrip utility.
-%%
-%% The original source files were:
-%%
-%% merlin.mbs (with options: `ay,nat,nm-rvx,keyxyr,dt-beg,yr-par,note-yr,tit-qq,bt-qq,atit-u,trnum-it,vol-bf,volp-com,num-xser,isbn,issn,edpar,pp,ed,xedn,xand,etal-it,revdata,eprint,url,url-blk,nfss')
-%% ----------------------------------------
-%% *** Journal of Statistical Software ***
-%%
-%% Copyright 1994-2002 Patrick W Daly
- % ===============================================================
- % IMPORTANT NOTICE:
- % This bibliographic style (bst) file has been generated from one or
- % more master bibliographic style (mbs) files, listed above.
- %
- % This generated file can be redistributed and/or modified under the terms
- % of the LaTeX Project Public License Distributed from CTAN
- % archives in directory macros/latex/base/lppl.txt; either
- % version 1 of the License, or any later version.
- % ===============================================================
- % Name and version information of the main mbs file:
- % \ProvidesFile{merlin.mbs}[2002/10/21 4.05 (PWD, AO, DPC)]
- % For use with BibTeX version 0.99a or later
- %-------------------------------------------------------------------
- % This bibliography style file is intended for texts in ENGLISH
- % This is an author-year citation style bibliography. As such, it is
- % non-standard LaTeX, and requires a special package file to function properly.
- % Such a package is natbib.sty by Patrick W. Daly
- % The form of the \bibitem entries is
- % \bibitem[Jones et al.(1990)]{key}...
- % \bibitem[Jones et al.(1990)Jones, Baker, and Smith]{key}...
- % The essential feature is that the label (the part in brackets) consists
- % of the author names, as they should appear in the citation, with the year
- % in parentheses following. There must be no space before the opening
- % parenthesis!
- % With natbib v5.3, a full list of authors may also follow the year.
- % In natbib.sty, it is possible to define the type of enclosures that is
- % really wanted (brackets or parentheses), but in either case, there must
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- % The \cite command functions as follows:
- % \citet{key} ==>> Jones et al. (1990)
- % \citet*{key} ==>> Jones, Baker, and Smith (1990)
- % \citep{key} ==>> (Jones et al., 1990)
- % \citep*{key} ==>> (Jones, Baker, and Smith, 1990)
- % \citep[chap. 2]{key} ==>> (Jones et al., 1990, chap. 2)
- % \citep[e.g.][]{key} ==>> (e.g. Jones et al., 1990)
- % \citep[e.g.][p. 32]{key} ==>> (e.g. Jones et al., p. 32)
- % \citeauthor{key} ==>> Jones et al.
- % \citeauthor*{key} ==>> Jones, Baker, and Smith
- % \citeyear{key} ==>> 1990
- %---------------------------------------------------------------------
-
-ENTRY
- { address
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- {}
- { label extra.label sort.label short.list }
-INTEGERS { output.state before.all mid.sentence after.sentence after.block }
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-{ #0 'before.all :=
- #1 'mid.sentence :=
- #2 'after.sentence :=
- #3 'after.block :=
-}
-STRINGS { s t}
-FUNCTION {output.nonnull}
-{ 's :=
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- { ", " * write$ }
- { output.state after.block =
- { add.period$ write$
- newline$
- "\newblock " write$
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- 'write$
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- if$
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- }
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- s
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-{ duplicate$ empty$
- 'pop$
- 'output.nonnull
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-{ 't :=
- duplicate$ empty$
- { pop$ "empty " t * " in " * cite$ * warning$ }
- 'output.nonnull
- if$
-}
-FUNCTION {fin.entry}
-{ add.period$
- write$
- newline$
-}
-
-FUNCTION {new.block}
-{ output.state before.all =
- 'skip$
- { after.block 'output.state := }
- if$
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-FUNCTION {new.sentence}
-{ output.state after.block =
- 'skip$
- { output.state before.all =
- 'skip$
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- if$
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-{ " " * before.all 'output.state :=
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-{
- new.block
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-{ duplicate$ empty$
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-{ duplicate$ text.length$ #3 <
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- swap$
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-{ "u" change.case$ "t" change.case$ }
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-{ " " swap$ * " " * }
- % Here are the language-specific definitions for explicit words.
- % Each function has a name bbl.xxx where xxx is the English word.
- % The language selected here is ENGLISH
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-{ "and"}
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-{ "et~al." }
-
-FUNCTION {bbl.editors}
-{ "eds." }
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-{ "ed." }
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-{ "edited by" }
-
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-{ "edition" }
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-{ "volume" }
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-{ "of" }
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-{ "number" }
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-{ "no." }
-
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-{ "in" }
-
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-{ "pp." }
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-{ "p." }
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-{ "pages" }
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-{ "chapter" }
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-{ "Technical Report" }
-
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-{ "Master's thesis" }
-
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-{ "Ph.D. thesis" }
-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-
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-{ swap$
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-{ swap$
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- { duplicate$ empty$
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- if$
- "{" * swap$ * "}" *
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-{ url empty$
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-
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- numnames 'namesleft :=
- { namesleft #0 > }
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- remove.dots
- bibinfo bibinfo.check
- 't :=
- nameptr #1 >
- {
- namesleft #1 >
- { ", " * t * }
- {
- "," *
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- { " " * t * }
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- if$
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- 't
- if$
- nameptr #1 + 'nameptr :=
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- while$
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-{
- 'bibinfo :=
- duplicate$ empty$ 'skip$ {
- 's :=
- "" 't :=
- #1 'nameptr :=
- s num.names$ 'numnames :=
- numnames 'namesleft :=
- { namesleft #0 > }
- { s nameptr
- "{f{}~}{vv~}{ll}{ jj}"
- format.name$
- remove.dots
- bibinfo bibinfo.check
- 't :=
- nameptr #1 >
- {
- namesleft #1 >
- { ", " * t * }
- {
- "," *
- s nameptr "{ll}" format.name$ duplicate$ "others" =
- { 't := }
- { pop$ }
- if$
- t "others" =
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-
- " " * bbl.etal emphasize *
- }
- { " " * t * }
- if$
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- if$
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- 't
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- nameptr #1 + 'nameptr :=
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-{ empty$
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-
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-{ author "author" format.names
- duplicate$ empty$ 'skip$
- { collaboration "collaboration" bibinfo.check
- duplicate$ empty$ 'skip$
- { " (" swap$ * ")" * }
- if$
- *
- }
- if$
-}
-FUNCTION {get.bbl.editor}
-{ editor num.names$ #1 > 'bbl.editors 'bbl.editor if$ }
-
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-{ editor "editor" format.names duplicate$ empty$ 'skip$
- {
- " " *
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- if$
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-{ isbn "isbn" bibinfo.check
- duplicate$ empty$ 'skip$
- {
- new.block
- "ISBN " swap$ *
- }
- if$
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-
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-{ issn "issn" bibinfo.check
- duplicate$ empty$ 'skip$
- {
- new.block
- "ISSN " swap$ *
- }
- if$
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-
-FUNCTION {format.note}
-{
- note empty$
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- { note #1 #1 substring$
- duplicate$ "{" =
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- { output.state mid.sentence =
- { "l" }
- { "u" }
- if$
- change.case$
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- if$
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- if$
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-
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-{ title
- "title" bibinfo.check
- duplicate$ empty$ 'skip$
- {
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- }
- if$
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-FUNCTION {end.quote.btitle}
-{ booktitle empty$
- 'skip$
- { before.all 'output.state := }
- if$
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-FUNCTION {format.full.names}
-{'s :=
- "" 't :=
- #1 'nameptr :=
- s num.names$ 'numnames :=
- numnames 'namesleft :=
- { namesleft #0 > }
- { s nameptr
- "{vv~}{ll}" format.name$
- 't :=
- nameptr #1 >
- {
- namesleft #1 >
- { ", " * t * }
- {
- s nameptr "{ll}" format.name$ duplicate$ "others" =
- { 't := }
- { pop$ }
- if$
- t "others" =
- {
- " " * bbl.etal emphasize *
- }
- {
- numnames #2 >
- { "," * }
- 'skip$
- if$
- bbl.and
- space.word * t *
- }
- if$
- }
- if$
- }
- 't
- if$
- nameptr #1 + 'nameptr :=
- namesleft #1 - 'namesleft :=
- }
- while$
-}
-
-FUNCTION {author.editor.key.full}
-{ author empty$
- { editor empty$
- { key empty$
- { cite$ #1 #3 substring$ }
- 'key
- if$
- }
- { editor format.full.names }
- if$
- }
- { author format.full.names }
- if$
-}
-
-FUNCTION {author.key.full}
-{ author empty$
- { key empty$
- { cite$ #1 #3 substring$ }
- 'key
- if$
- }
- { author format.full.names }
- if$
-}
-
-FUNCTION {editor.key.full}
-{ editor empty$
- { key empty$
- { cite$ #1 #3 substring$ }
- 'key
- if$
- }
- { editor format.full.names }
- if$
-}
-
-FUNCTION {make.full.names}
-{ type$ "book" =
- type$ "inbook" =
- or
- 'author.editor.key.full
- { type$ "proceedings" =
- 'editor.key.full
- 'author.key.full
- if$
- }
- if$
-}
-
-FUNCTION {output.bibitem}
-{ newline$
- "\bibitem[{" write$
- label write$
- ")" make.full.names duplicate$ short.list =
- { pop$ }
- { * }
- if$
- "}]{" * write$
- cite$ write$
- "}" write$
- newline$
- ""
- before.all 'output.state :=
-}
-
-FUNCTION {n.dashify}
-{
- 't :=
- ""
- { t empty$ not }
- { t #1 #1 substring$ "-" =
- { t #1 #2 substring$ "--" = not
- { "--" *
- t #2 global.max$ substring$ 't :=
- }
- { { t #1 #1 substring$ "-" = }
- { "-" *
- t #2 global.max$ substring$ 't :=
- }
- while$
- }
- if$
- }
- { t #1 #1 substring$ *
- t #2 global.max$ substring$ 't :=
- }
- if$
- }
- while$
-}
-
-FUNCTION {word.in}
-{ bbl.in capitalize
- " " * }
-
-FUNCTION {format.date}
-{ year "year" bibinfo.check duplicate$ empty$
- {
- "empty year in " cite$ * "; set to ????" * warning$
- pop$ "????"
- }
- 'skip$
- if$
- extra.label *
- before.all 'output.state :=
- " (" swap$ * ")" *
-}
-FUNCTION {format.btitle}
-{ title "title" bibinfo.check
- duplicate$ empty$ 'skip$
- {
- emphasize
- }
- if$
-}
-FUNCTION {either.or.check}
-{ empty$
- 'pop$
- { "can't use both " swap$ * " fields in " * cite$ * warning$ }
- if$
-}
-FUNCTION {format.bvolume}
-{ volume empty$
- { "" }
- { bbl.volume volume tie.or.space.prefix
- "volume" bibinfo.check * *
- series "series" bibinfo.check
- duplicate$ empty$ 'pop$
- { swap$ bbl.of space.word * swap$
- emphasize * }
- if$
- "volume and number" number either.or.check
- }
- if$
-}
-FUNCTION {format.number.series}
-{ volume empty$
- { number empty$
- { series field.or.null }
- { series empty$
- { number "number" bibinfo.check }
- { output.state mid.sentence =
- { bbl.number }
- { bbl.number capitalize }
- if$
- number tie.or.space.prefix "number" bibinfo.check * *
- bbl.in space.word *
- series "series" bibinfo.check *
- }
- if$
- }
- if$
- }
- { "" }
- if$
-}
-
-FUNCTION {format.edition}
-{ edition duplicate$ empty$ 'skip$
- {
- output.state mid.sentence =
- { "l" }
- { "t" }
- if$ change.case$
- "edition" bibinfo.check
- " " * bbl.edition *
- }
- if$
-}
-INTEGERS { multiresult }
-FUNCTION {multi.page.check}
-{ 't :=
- #0 'multiresult :=
- { multiresult not
- t empty$ not
- and
- }
- { t #1 #1 substring$
- duplicate$ "-" =
- swap$ duplicate$ "," =
- swap$ "+" =
- or or
- { #1 'multiresult := }
- { t #2 global.max$ substring$ 't := }
- if$
- }
- while$
- multiresult
-}
-FUNCTION {format.pages}
-{ pages duplicate$ empty$ 'skip$
- { duplicate$ multi.page.check
- {
- bbl.pages swap$
- n.dashify
- }
- {
- bbl.page swap$
- }
- if$
- tie.or.space.prefix
- "pages" bibinfo.check
- * *
- }
- if$
-}
-FUNCTION {format.journal.pages}
-{ pages duplicate$ empty$ 'pop$
- { swap$ duplicate$ empty$
- { pop$ pop$ format.pages }
- {
- ", " *
- swap$
- n.dashify
- "pages" bibinfo.check
- *
- }
- if$
- }
- if$
-}
-FUNCTION {format.journal.eid}
-{ eid "eid" bibinfo.check
- duplicate$ empty$ 'skip$
- { swap$ duplicate$ empty$ 'skip$
- {
- ", " *
- }
- if$
- swap$
- numpages empty$ 'skip$
- { bbl.eidpp numpages tie.or.space.prefix
- "numpages" bibinfo.check * *
- " (" swap$ * ")" * *
- }
- if$
- }
- if$ *
-}
-FUNCTION {format.vol.num.pages}
-{ volume field.or.null
- duplicate$ empty$ 'skip$
- {
- "volume" bibinfo.check
- }
- if$
- bolden
- number "number" bibinfo.check duplicate$ empty$ 'skip$
- {
- swap$ duplicate$ empty$
- { "there's a number but no volume in " cite$ * warning$ }
- 'skip$
- if$
- swap$
- "(" swap$ * ")" *
- }
- if$ *
- eid empty$
- { format.journal.pages }
- { format.journal.eid }
- if$
-}
-
-FUNCTION {format.chapter.pages}
-{ chapter empty$
- 'format.pages
- { type empty$
- { bbl.chapter }
- { type "l" change.case$
- "type" bibinfo.check
- }
- if$
- chapter tie.or.space.prefix
- "chapter" bibinfo.check
- * *
- pages empty$
- 'skip$
- { ", " * format.pages * }
- if$
- }
- if$
-}
-
-FUNCTION {bt.enquote}
-{ duplicate$ empty$ 'skip$
- { "\enquote{" swap$ *
- non.stop
- { ",} " * }
- { "}, " * }
- if$
- }
- if$
-}
-FUNCTION {format.booktitle}
-{
- booktitle "booktitle" bibinfo.check
- bt.enquote
-}
-FUNCTION {format.in.ed.booktitle}
-{ format.booktitle duplicate$ empty$ 'skip$
- {
- editor "editor" format.names.ed duplicate$ empty$ 'pop$
- {
- " " *
- get.bbl.editor
- "(" swap$ * "), " *
- * swap$
- * }
- if$
- word.in swap$ *
- }
- if$
-}
-FUNCTION {format.thesis.type}
-{ type duplicate$ empty$
- 'pop$
- { swap$ pop$
- "t" change.case$ "type" bibinfo.check
- }
- if$
-}
-FUNCTION {format.tr.number}
-{ number "number" bibinfo.check
- type duplicate$ empty$
- { pop$ bbl.techrep }
- 'skip$
- if$
- "type" bibinfo.check
- swap$ duplicate$ empty$
- { pop$ "t" change.case$ }
- { tie.or.space.prefix * * }
- if$
-}
-FUNCTION {format.article.crossref}
-{
- word.in
- " \cite{" * crossref * "}" *
-}
-FUNCTION {format.book.crossref}
-{ volume duplicate$ empty$
- { "empty volume in " cite$ * "'s crossref of " * crossref * warning$
- pop$ word.in
- }
- { bbl.volume
- capitalize
- swap$ tie.or.space.prefix "volume" bibinfo.check * * bbl.of space.word *
- }
- if$
- " \cite{" * crossref * "}" *
-}
-FUNCTION {format.incoll.inproc.crossref}
-{
- word.in
- " \cite{" * crossref * "}" *
-}
-FUNCTION {format.org.or.pub}
-{ 't :=
- ""
- address empty$ t empty$ and
- 'skip$
- {
- t empty$
- { address "address" bibinfo.check *
- }
- { t *
- address empty$
- 'skip$
- { ", " * address "address" bibinfo.check * }
- if$
- }
- if$
- }
- if$
-}
-FUNCTION {format.publisher.address}
-{ publisher "publisher" bibinfo.warn format.org.or.pub
-}
-
-FUNCTION {format.organization.address}
-{ organization "organization" bibinfo.check format.org.or.pub
-}
-
-FUNCTION {article}
-{ output.bibitem
- format.authors "author" output.check
- author format.key output
- format.date "year" output.check
- date.block
- format.title "title" output.check
- new.block
- crossref missing$
- {
- journal
- "journal" bibinfo.check
- emphasize
- "journal" output.check
- format.vol.num.pages output
- }
- { format.article.crossref output.nonnull
- format.pages output
- }
- if$
- format.issn output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-FUNCTION {book}
-{ output.bibitem
- author empty$
- { format.editors "author and editor" output.check
- editor format.key output
- }
- { format.authors output.nonnull
- crossref missing$
- { "author and editor" editor either.or.check }
- 'skip$
- if$
- }
- if$
- format.date "year" output.check
- date.block
- format.btitle "title" output.check
- crossref missing$
- { format.bvolume output
- new.block
- format.number.series output
- new.sentence
- format.publisher.address output
- }
- {
- new.block
- format.book.crossref output.nonnull
- }
- if$
- format.edition output
- format.isbn output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-FUNCTION {booklet}
-{ output.bibitem
- format.authors output
- author format.key output
- format.date "year" output.check
- date.block
- format.title "title" output.check
- new.block
- howpublished "howpublished" bibinfo.check output
- address "address" bibinfo.check output
- format.isbn output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-
-FUNCTION {inbook}
-{ output.bibitem
- author empty$
- { format.editors "author and editor" output.check
- editor format.key output
- }
- { format.authors output.nonnull
- crossref missing$
- { "author and editor" editor either.or.check }
- 'skip$
- if$
- }
- if$
- format.date "year" output.check
- date.block
- format.btitle "title" output.check
- crossref missing$
- {
- format.bvolume output
- format.chapter.pages "chapter and pages" output.check
- new.block
- format.number.series output
- new.sentence
- format.publisher.address output
- }
- {
- format.chapter.pages "chapter and pages" output.check
- new.block
- format.book.crossref output.nonnull
- }
- if$
- format.edition output
- crossref missing$
- { format.isbn output }
- 'skip$
- if$
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-
-FUNCTION {incollection}
-{ output.bibitem
- format.authors "author" output.check
- author format.key output
- format.date "year" output.check
- date.block
- format.title "title" output.check
- new.block
- crossref missing$
- { format.in.ed.booktitle "booktitle" output.check
- end.quote.btitle
- format.bvolume output
- format.number.series output
- format.chapter.pages output
- new.sentence
- format.publisher.address output
- format.edition output
- format.isbn output
- }
- { format.incoll.inproc.crossref output.nonnull
- format.chapter.pages output
- }
- if$
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-FUNCTION {inproceedings}
-{ output.bibitem
- format.authors "author" output.check
- author format.key output
- format.date "year" output.check
- date.block
- format.title "title" output.check
- new.block
- crossref missing$
- { format.in.ed.booktitle "booktitle" output.check
- end.quote.btitle
- format.bvolume output
- format.number.series output
- format.pages output
- new.sentence
- publisher empty$
- { format.organization.address output }
- { organization "organization" bibinfo.check output
- format.publisher.address output
- }
- if$
- format.isbn output
- format.issn output
- }
- { format.incoll.inproc.crossref output.nonnull
- format.pages output
- }
- if$
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-FUNCTION {conference} { inproceedings }
-FUNCTION {manual}
-{ output.bibitem
- format.authors output
- author format.key output
- format.date "year" output.check
- date.block
- format.btitle "title" output.check
- organization address new.block.checkb
- organization "organization" bibinfo.check output
- address "address" bibinfo.check output
- format.edition output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-
-FUNCTION {mastersthesis}
-{ output.bibitem
- format.authors "author" output.check
- author format.key output
- format.date "year" output.check
- date.block
- format.btitle
- "title" output.check
- new.block
- bbl.mthesis format.thesis.type output.nonnull
- school "school" bibinfo.warn output
- address "address" bibinfo.check output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-
-FUNCTION {misc}
-{ output.bibitem
- format.authors output
- author format.key output
- format.date "year" output.check
- date.block
- format.title output
- new.block
- howpublished "howpublished" bibinfo.check output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-FUNCTION {phdthesis}
-{ output.bibitem
- format.authors "author" output.check
- author format.key output
- format.date "year" output.check
- date.block
- format.btitle
- "title" output.check
- new.block
- bbl.phdthesis format.thesis.type output.nonnull
- school "school" bibinfo.warn output
- address "address" bibinfo.check output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-
-FUNCTION {proceedings}
-{ output.bibitem
- format.editors output
- editor format.key output
- format.date "year" output.check
- date.block
- format.btitle "title" output.check
- format.bvolume output
- format.number.series output
- new.sentence
- publisher empty$
- { format.organization.address output }
- { organization "organization" bibinfo.check output
- format.publisher.address output
- }
- if$
- format.isbn output
- format.issn output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-
-FUNCTION {techreport}
-{ output.bibitem
- format.authors "author" output.check
- author format.key output
- format.date "year" output.check
- date.block
- format.title
- "title" output.check
- new.block
- format.tr.number emphasize output.nonnull
- institution "institution" bibinfo.warn output
- address "address" bibinfo.check output
- new.block
- format.note output
- format.eprint output
- format.url output
- fin.entry
-}
-
-FUNCTION {unpublished}
-{ output.bibitem
- format.authors "author" output.check
- author format.key output
- format.date "year" output.check
- date.block
- format.title "title" output.check
- new.block
- format.note "note" output.check
- format.eprint output
- format.url output
- fin.entry
-}
-
-FUNCTION {default.type} { misc }
-READ
-FUNCTION {sortify}
-{ purify$
- "l" change.case$
-}
-INTEGERS { len }
-FUNCTION {chop.word}
-{ 's :=
- 'len :=
- s #1 len substring$ =
- { s len #1 + global.max$ substring$ }
- 's
- if$
-}
-FUNCTION {format.lab.names}
-{ 's :=
- "" 't :=
- s #1 "{vv~}{ll}" format.name$
- s num.names$ duplicate$
- #2 >
- { pop$
- " " * bbl.etal emphasize *
- }
- { #2 <
- 'skip$
- { s #2 "{ff }{vv }{ll}{ jj}" format.name$ "others" =
- {
- " " * bbl.etal emphasize *
- }
- { bbl.and space.word * s #2 "{vv~}{ll}" format.name$
- * }
- if$
- }
- if$
- }
- if$
-}
-
-FUNCTION {author.key.label}
-{ author empty$
- { key empty$
- { cite$ #1 #3 substring$ }
- 'key
- if$
- }
- { author format.lab.names }
- if$
-}
-
-FUNCTION {author.editor.key.label}
-{ author empty$
- { editor empty$
- { key empty$
- { cite$ #1 #3 substring$ }
- 'key
- if$
- }
- { editor format.lab.names }
- if$
- }
- { author format.lab.names }
- if$
-}
-
-FUNCTION {editor.key.label}
-{ editor empty$
- { key empty$
- { cite$ #1 #3 substring$ }
- 'key
- if$
- }
- { editor format.lab.names }
- if$
-}
-
-FUNCTION {calc.short.authors}
-{ type$ "book" =
- type$ "inbook" =
- or
- 'author.editor.key.label
- { type$ "proceedings" =
- 'editor.key.label
- 'author.key.label
- if$
- }
- if$
- 'short.list :=
-}
-
-FUNCTION {calc.label}
-{ calc.short.authors
- short.list
- "("
- *
- year duplicate$ empty$
- short.list key field.or.null = or
- { pop$ "" }
- 'skip$
- if$
- *
- 'label :=
-}
-
-FUNCTION {sort.format.names}
-{ 's :=
- #1 'nameptr :=
- ""
- s num.names$ 'numnames :=
- numnames 'namesleft :=
- { namesleft #0 > }
- { s nameptr
- "{vv{ } }{ll{ }}{ f{ }}{ jj{ }}"
- format.name$ 't :=
- nameptr #1 >
- {
- " " *
- namesleft #1 = t "others" = and
- { "zzzzz" * }
- { t sortify * }
- if$
- }
- { t sortify * }
- if$
- nameptr #1 + 'nameptr :=
- namesleft #1 - 'namesleft :=
- }
- while$
-}
-
-FUNCTION {sort.format.title}
-{ 't :=
- "A " #2
- "An " #3
- "The " #4 t chop.word
- chop.word
- chop.word
- sortify
- #1 global.max$ substring$
-}
-FUNCTION {author.sort}
-{ author empty$
- { key empty$
- { "to sort, need author or key in " cite$ * warning$
- ""
- }
- { key sortify }
- if$
- }
- { author sort.format.names }
- if$
-}
-FUNCTION {author.editor.sort}
-{ author empty$
- { editor empty$
- { key empty$
- { "to sort, need author, editor, or key in " cite$ * warning$
- ""
- }
- { key sortify }
- if$
- }
- { editor sort.format.names }
- if$
- }
- { author sort.format.names }
- if$
-}
-FUNCTION {editor.sort}
-{ editor empty$
- { key empty$
- { "to sort, need editor or key in " cite$ * warning$
- ""
- }
- { key sortify }
- if$
- }
- { editor sort.format.names }
- if$
-}
-FUNCTION {presort}
-{ calc.label
- label sortify
- " "
- *
- type$ "book" =
- type$ "inbook" =
- or
- 'author.editor.sort
- { type$ "proceedings" =
- 'editor.sort
- 'author.sort
- if$
- }
- if$
- #1 entry.max$ substring$
- 'sort.label :=
- sort.label
- *
- " "
- *
- title field.or.null
- sort.format.title
- *
- #1 entry.max$ substring$
- 'sort.key$ :=
-}
-
-ITERATE {presort}
-SORT
-STRINGS { last.label next.extra }
-INTEGERS { last.extra.num number.label }
-FUNCTION {initialize.extra.label.stuff}
-{ #0 int.to.chr$ 'last.label :=
- "" 'next.extra :=
- #0 'last.extra.num :=
- #0 'number.label :=
-}
-FUNCTION {forward.pass}
-{ last.label label =
- { last.extra.num #1 + 'last.extra.num :=
- last.extra.num int.to.chr$ 'extra.label :=
- }
- { "a" chr.to.int$ 'last.extra.num :=
- "" 'extra.label :=
- label 'last.label :=
- }
- if$
- number.label #1 + 'number.label :=
-}
-FUNCTION {reverse.pass}
-{ next.extra "b" =
- { "a" 'extra.label := }
- 'skip$
- if$
- extra.label 'next.extra :=
- extra.label
- duplicate$ empty$
- 'skip$
- { "{\natexlab{" swap$ * "}}" * }
- if$
- 'extra.label :=
- label extra.label * 'label :=
-}
-EXECUTE {initialize.extra.label.stuff}
-ITERATE {forward.pass}
-REVERSE {reverse.pass}
-FUNCTION {bib.sort.order}
-{ sort.label
- " "
- *
- year field.or.null sortify
- *
- " "
- *
- title field.or.null
- sort.format.title
- *
- #1 entry.max$ substring$
- 'sort.key$ :=
-}
-ITERATE {bib.sort.order}
-SORT
-FUNCTION {begin.bib}
-{ preamble$ empty$
- 'skip$
- { preamble$ write$ newline$ }
- if$
- "\begin{thebibliography}{" number.label int.to.str$ * "}" *
- write$ newline$
- "\newcommand{\enquote}[1]{``#1''}"
- write$ newline$
- "\expandafter\ifx\csname natexlab\endcsname\relax\def\natexlab#1{#1}\fi"
- write$ newline$
- "\expandafter\ifx\csname url\endcsname\relax"
- write$ newline$
- " \def\url#1{\texttt{#1}}\fi"
- write$ newline$
- "\expandafter\ifx\csname urlprefix\endcsname\relax\def\urlprefix{URL }\fi"
- write$ newline$
- "\providecommand{\eprint}[2][]{\url{#2}}"
- write$ newline$
-}
-EXECUTE {begin.bib}
-EXECUTE {init.state.consts}
-ITERATE {call.type$}
-FUNCTION {end.bib}
-{ newline$
- "\end{thebibliography}" write$ newline$
-}
-EXECUTE {end.bib}
-%% End of customized bst file
-%%
-%% End of file `jss.bst'.
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diff --git a/inst/doc/proto-raw.tex b/vignettes/proto-raw.tex
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diff --git a/inst/doc/proto-smoothing03.pdf b/vignettes/proto-smoothing03.pdf
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diff --git a/inst/doc/proto-smoothing06.pdf b/vignettes/proto-smoothing06.pdf
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diff --git a/inst/doc/proto-smoothing10.pdf b/vignettes/proto-smoothing10.pdf
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diff --git a/inst/doc/proto.Rnw b/vignettes/proto.Rnw
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copy from inst/doc/proto.Rnw
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diff --git a/inst/doc/proto.bib b/vignettes/proto.bib
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diff --git a/inst/doc/proto.tex b/vignettes/proto.tex
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diff --git a/inst/doc/protoref-raw.tex b/vignettes/protoref-raw.tex
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diff --git a/inst/doc/protoref.Rnw b/vignettes/protoref.Rnw
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copy from inst/doc/protoref.Rnw
copy to vignettes/protoref.Rnw
--
Packaging for R/CRAN/proto in Debian
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