[Pomp-commits] r962 - in pkg: . pomp

[noreply at r-forge.r-project.org]

Author: kingaa
Date: 2014-05-23 18:23:12 +0200 (Fri, 23 May 2014)
New Revision: 962

Added:
   pkg/Makefile
Modified:
   pkg/pomp/DESCRIPTION
Log:
- add Makefile for package building and testing

Added: pkg/Makefile
===================================================================
--- pkg/Makefile	                        (rev 0)
+++ pkg/Makefile	2014-05-23 16:23:12 UTC (rev 962)
@@ -0,0 +1,176 @@
+REPOS=/var/www/html/R/
+SRCREPOS=src/contrib
+WINREPOS=bin/windows/contrib/3.1
+DOCREPOS=doc/packages
+ARCHIVE=./dists
+INSTALL_DIR=./library
+
+REXE = R --vanilla
+RCMD = $(REXE) CMD
+RSCRIPT = Rscript --vanilla
+
+PDFLATEX = pdflatex
+BIBTEX = bibtex
+MAKEIDX = makeindex
+
+RM = rm -f
+CP = cp
+TOUCH = touch
+INSTALL = install
+
+default:
+
+.PHONY:
+
+pomp.dist: pomp/inst/include/pomp.h
+
+pomp/inst/include/pomp.h: pomp/src/pomp.h
+	$(CP) $^ $@
+
+pompweb.vignettes: export POMP_BUILD_VIGNETTES=yes
+%.dist %.manual %.vignettes: export R_QPDF=qpdf
+%.dist %.manual %.vignettes: export R_GSCMD=gs
+%.dist %.manual %.vignettes: export GS_QUALITY=ebook
+%.dist %.manual %.vignettes: export R_HOME=$(shell $(REXE) RHOME)
+%.check %.crancheck: export _R_CHECK_ALL_NON_ISO_C_=TRUE
+%.check %.crancheck: export _R_CHECK_WALL_FORTRAN_=TRUE
+%.check %.xcheck: export POMP_FULL_TESTS=yes
+%.vignettes %.data: export R_LIBS=$(CURDIR)/library
+%.bin %.check %.qcheck %.qqcheck %.xcheck %.crancheck %.upload %.publish %.clean %.install %.win: PKG = $*_$(shell perl -ne 'print $$1 if /Version:\s+(\d+\.\d+-\d+)/;' $*/DESCRIPTION)
+
+pompweb.vignettes: pomp.install pomp.manual
+	(cd pompweb/vignettes; make)
+	cp pomp.pdf pompweb/vignettes
+	$(RCMD) Rdconv -t html pomp/inst/NEWS.Rd -o pompweb/content/NEWS.html
+
+%.vignettes: %.install
+	cd $*/vignettes; make 
+
+%.data: %.install
+	cd $*/inst/data-R; make
+
+%.win: %.dist
+	ncftpput -v win-builder.r-project.org R-release $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.upload: %.dist
+	ncftpput -v cran.r-project.org incoming $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.crandist: %.cransrc
+	$(RCMD) build --resave-data --compact-vignettes --md5 cran/$*
+	$(TOUCH) $@
+
+%.crancheck: %.crandist
+	$(RCMD) check --as-cran --library=check $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.cransrc:
+	$(RM) -r cran
+	mkdir -p cran
+	svn export $* cran/$*
+	$(RM) -r cran/$*/tests 
+	$(TOUCH) $@
+
+%.xcheck: %.dist
+	$(RCMD) check --use-gct --use-valgrind --timings --library=check $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.check: %.dist
+	$(RCMD) check --library=check $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.qcheck: %.dist
+	$(RCMD) check --library=check --no-vignettes --no-tests $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.qqcheck: %.dist
+	$(RCMD) check --library=check --no-codoc --no-examples --no-vignettes --no-manual --no-tests $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.changelog:
+	$(SVN) update $*
+	$(SVN2CL) --include-rev --group-by-day -o $*/inst/ChangeLog $*
+	$(SVN) info $* | perl -ne "print if /Revision|Date/;" > $*/inst/SVN-REVISION
+	$(TOUCH) $@
+
+%.manual:
+	$(RM) $*.pdf
+	$(RCMD) Rd2pdf --no-preview --pdf $*
+	$(RSCRIPT) -e "tools::compactPDF(\"$*.pdf\")";
+	$(TOUCH) $@
+
+%.included_manual: %.manual
+	$(CP) $*.pdf $*/inst/doc/manual.pdf
+	$(TOUCH) $@
+
+%.dist: %.manual
+	-$(RCMD) Rdconv -t txt $*/inst/NEWS.Rd -o $*/inst/NEWS
+	$(RCMD) build --force --no-manual --resave-data --compact-vignettes=both $*
+	$(TOUCH) $@
+
+%.bin: %.dist
+	$(RCMD) build --force --binary $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.clean: clean
+	$(RM) $*.dist $*.check $*.qcheck $*.qqcheck $*.crancheck $*.manual $*.cransrc
+	$(RM) -r $*.Rcheck check/$* cran/$*
+	$(RM) $*/src/*.o $*/src/*.so $*/src/symbols.rds $*/vignettes/Rplots.*
+	$(RM) $(PKG).tar.gz $(PKG).zip $*.pdf
+
+%.distclean: %.clean
+	$(RM) $*.win $*.upload $*.bin $*.changelog $*.crandist $*.included_manual
+
+%.install: %.dist
+	mkdir -p $(INSTALL_DIR)
+	$(RCMD) INSTALL --library=$(INSTALL_DIR) $(PKG).tar.gz
+	$(TOUCH) $@
+
+%.remove:
+	$(RCMD) REMOVE --library=$(INSTALL_DIR) $*
+	$(RM) $*.install
+
+%.publish: %.dist %.manual
+	mkdir -m0755 -p $(REPOS)/$(WINREPOS)
+	mkdir -m0755 -p $(REPOS)/$(SRCREPOS)
+	mkdir -m0755 -p $(REPOS)/$(DOCREPOS)
+	(cd $(REPOS)/$(WINREPOS); $(RM) $*_*.zip)
+	(cd $(REPOS)/$(SRCREPOS); $(RM) $*_*.tar.gz)
+	(cd $(REPOS)/$(DOCREPOS); $(RM) $*.pdf)
+	-$(INSTALL) -m0644 $(PKG).zip $(REPOS)/$(WINREPOS)
+	-$(INSTALL) -m0644 $(PKG).tar.gz $(REPOS)/$(SRCREPOS)
+	-$(INSTALL) -m0644 $*.pdf $(REPOS)/$(DOCREPOS)
+	$(RSCRIPT) pkgindex.R winrepos="\"$(REPOS)/$(WINREPOS)\"" srcrepos="\"$(REPOS)/$(SRCREPOS)\""
+	mkdir -p $(ARCHIVE)
+	-$(INSTALL) -m0644 $(PKG).zip $(ARCHIVE)
+	-$(INSTALL) -m0644 $(PKG).tar.gz $(ARCHIVE)
+	-$(INSTALL) -m0644 $*.pdf $(ARCHIVE)
+	$(RSCRIPT) pkgindex.R
+
+%.tex: %.Rnw
+	$(RCMD) Sweave $*
+
+%.R: %.Rnw
+	$(RCMD) Stangle $*
+
+%.pdf: %.tex
+	$(PDFLATEX) $*
+	-$(BIBTEX) $*
+	$(PDFLATEX) $*
+	$(PDFLATEX) $*
+
+%.bbl: %.tex
+	-$(PDFLATEX) $*
+	$(BIBTEX) $*
+
+%.idx: %.tex
+	-$(PDFLATEX) $*
+
+%.ind: %.idx
+	$(MAKEIDX) $*
+
+clean:
+	$(RM) *.o *.so *.tex *.log *.aux *.out *.nav *.snm *.toc *-???.pdf Rplots.ps Rplots.pdf
+
+.SECONDARY:

Modified: pkg/pomp/DESCRIPTION
===================================================================
--- pkg/pomp/DESCRIPTION	2014-05-23 16:23:09 UTC (rev 961)
+++ pkg/pomp/DESCRIPTION	2014-05-23 16:23:12 UTC (rev 962)
@@ -2,7 +2,7 @@
 Type: Package
 Title: Statistical inference for partially observed Markov processes
 Version: 0.51-1
-Date: 2014-05-21
+Date: 2014-05-23
 Authors at R: c(person(given=c("Aaron","A."),family="King",
 		role=c("aut","cre"),email="kingaa at umich.edu"),
 	  person(given=c("Edward","L."),family="Ionides",role=c("aut")),