Import of pkgsrc-2015Q2

pkgtools/R2pkg/DESCR

@@ -0,0 +1,3 @@
+The R2pkg program, which is modeled after url2pkg, creates a new
+pkgsrc package for the corresponding R package.  It is intended to
+help pkgsrc developers create new R packages quickly and easily.

pkgtools/R2pkg/Makefile

@@ -0,0 +1,41 @@
+# $NetBSD: Makefile,v 1.1 2015/04/25 22:06:34 brook Exp $
+#
+
+VERS=		0.2
+PKGNAME=	R2pkg-${VERS}
+CATEGORIES=	pkgtools
+
+MAINTAINER=	brook@NetBSD.org
+HOMEPAGE=	# none
+COMMENT=	Tool to automate initial steps in building an R package
+LICENSE=	modified-bsd
+
+WRKSRC=			${WRKDIR}
+NO_BUILD=		yes
+USE_LANGUAGES=		# none
+AUTO_MKDIRS=		yes
+
+SUBST_CLASSES+=		version
+SUBST_STAGE.version=	pre-configure
+SUBST_MESSAGE.version=	Substituting version in R2pkg.sh.
+SUBST_FILES.version=	R2pkg.sh
+SUBST_VARS.version=	VERS
+
+SUBST_CLASSES+=		tools
+SUBST_STAGE.tools=	pre-configure
+SUBST_MESSAGE.tools=	Substituting tool locations.
+SUBST_FILES.tools=	R2pkg.sh
+SUBST_VARS.tools=	MAKE
+
+INSTALLATION_DIRS+=	sbin ${PKGMANDIR}/man8
+
+do-extract:
+	${CP} ${FILESDIR}/R2pkg.sh ${WRKSRC}
+	${CP} ${FILESDIR}/R2pkg.8 ${WRKSRC}
+
+do-install:
+	${INSTALL_SCRIPT} ${WRKSRC}/R2pkg.sh ${DESTDIR}${PREFIX}/sbin/R2pkg
+	${INSTALL_MAN} ${WRKSRC}/R2pkg.8 ${DESTDIR}${PREFIX}/${PKGMANDIR}/man8/R2pkg.8
+
+.include "../../math/R/buildlink3.mk"
+.include "../../mk/bsd.pkg.mk"

pkgtools/R2pkg/PLIST

@@ -0,0 +1,3 @@
+@comment $NetBSD: PLIST,v 1.1 2015/04/25 22:06:34 brook Exp $
+man/man8/R2pkg.8
+sbin/R2pkg

pkgtools/R2pkg/files/R2pkg.8

@@ -0,0 +1,149 @@
+.\"	$NetBSD: R2pkg.8,v 1.1 2015/04/25 22:06:34 brook Exp $
+.\"
+.\" Copyright (c) 2014,2015
+.\"	Brook Milligan.  All rights reserved.
+.\"
+.\" Redistribution and use in source and binary forms, with or without
+.\" modification, are permitted provided that the following conditions
+.\" are met:
+.\" 1. Redistributions of source code must retain the above copyright
+.\"    notice, this list of conditions and the following disclaimer.
+.\" 2. Redistributions in binary form must reproduce the above copyright
+.\"    notice, this list of conditions and the following disclaimer in the
+.\"    documentation and/or other materials provided with the distribution.
+.\" 3. Neither the name of the author nor the names of any contributors
+.\"    may be used to endorse or promote products derived from this software
+.\"    without specific prior written permission.
+.\"
+.\" THIS SOFTWARE IS PROVIDED BY THE AUTHOR AND CONTRIBUTORS ``AS IS'' AND
+.\" ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+.\" IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+.\" ARE DISCLAIMED.  IN NO EVENT SHALL THE REGENTS OR CONTRIBUTORS BE LIABLE
+.\" FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+.\" DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS
+.\" OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
+.\" HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
+.\" LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
+.\" OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF
+.\" SUCH DAMAGE.
+.\"
+.\"
+.Dd April 25, 2015
+.Dt R2pkg 8
+.Os
+.Sh NAME
+.Nm R2pkg
+.Nd create a pkgsrc package for an R package
+.Sh SYNOPSIS
+.Nm
+.Op Fl DVehqv
+.Op Fl E Ar editor
+.Op Ar package
+.Sh DESCRIPTION
+.Nm
+takes the name of an R
+.Ar package
+that should be turned into a
+.Xr pkgsrc 7
+package in the current directory.  The generated package includes a
+.Pa Makefile
+and a mostly complete set of files to get the package going.  However, the files should be reviewed and perhaps adjusted manually after 
+.Nm
+has finished its job.  To help with this, the original versions of files created by
+.Nm
+are preserved for reference.
+.Pp
+.Nm
+is intended to help the process of creating a package but is not
+intended to fly on autopilot.
+.Pp
+The
+.Pa Makefile
+contains all of the variables required for an R package, with information being taken from the package's
+.Pa DESCRIPTION
+file on CRAN, which is automatically fetched by
+.Nm .
+Likewise, the
+.Pa DESCR
+file is populated with information from the same file.  After
+.Pa Makefile 
+and
+.Pa DESCR
+are completed,
+.Nm
+fetches the package and computes its checksum via the
+.Ic makesum
+target.  Then the package is extracted via the
+.Ic extract
+target.
+.Pp
+If the user does not supply the
+.Ar package
+on the command line, then
+.Nm
+will prompt for it.
+.Pp
+The following options are available:
+.Bl -tag -width indent
+.It Fl D
+Write the package's description into
+.Pa DESCRIPTION .
+This may be useful for verifying the information obtained from CRAN.  However, this file must be removed as it is not part of a
+.Xr pkgsrc 7
+package.
+.It Fl E Ar editor
+Use
+.Ar editor 
+instead of the user's default editor.
+.It Fl V
+Print the version.
+.It Fl e
+Do not edit Makefile and DESCR.
+.It Fl h
+Produce a short help message.
+.It Fl q
+Do not produce status messages along the way.
+.It Fl v
+Generate verbose output.  This may be repeated to increase the verbosity.
+.El
+.Sh ENVIRONMENT
+The following environment variables affect the execution of
+.Nm :
+.Bl -tag -width BLOCKSIZE
+.It Ev PKGEDITOR, EDITOR
+Editor used for editing
+.Pa Makefile
+and
+.Pa DESCR .
+.It Ev CRAN_URL
+The URL to the CRAN mirror for downloading the package's DESCRIPTION
+file.  By default,
+.Pa ftp://cran.r-project.org .
+.El
+.Sh EXAMPLES
+Use the following commands to create a
+.Xr pkgsrc 7
+package for the R package
+.Ar foo :
+.Dl cd pkgsrc/math
+.Dl mkdir R-foo
+.Dl cd R-foo
+.Dl R2pkg foo
+Remember to test the resulting package and remove any extra files created by
+.Nm .
+.Sh BUGS
+.Nm
+does not create a finished package; instead, it facilitates the task.
+However, the resulting files must be reviewed and possibly edited by
+hand.  Although dependencies are included in the generated
+.Pa Makefile ,
+they are only comments; no attempt is made to find corresponding
+packages within 
+.Xr pkgsrc 7 .
+As a consequence, the category of dependencies is also not determined.
+.Sh SEE ALSO
+.Xr pkgsrc 7
+.Sh AUTHORS
+.Nm
+was written by
+.An Brook Milligan Aq Mt brook@NetBSD.org .

pkgtools/R2pkg/files/R2pkg.sh

@@ -0,0 +1,301 @@
+#!/bin/sh
+# R2pkg
+#
+# Copyright (c) 2014,2015
+#	Brook Milligan.  All rights reserved.
+#
+# Redistribution and use in source and binary forms, with or without
+# modification, are permitted provided that the following conditions
+# are met:
+# 1. Redistributions of source code must retain the above copyright
+#    notice, this list of conditions and the following disclaimer.
+# 2. Redistributions in binary form must reproduce the above copyright
+#    notice, this list of conditions and the following disclaimer in the
+#    documentation and/or other materials provided with the distribution.
+# 3. Neither the name of the author nor the names of any contributors
+#    may be used to endorse or promote products derived from this software
+#    without specific prior written permission.
+#
+# THIS SOFTWARE IS PROVIDED BY THE AUTHOR AND CONTRIBUTORS ``AS IS'' AND
+# ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+# ARE DISCLAIMED.  IN NO EVENT SHALL THE REGENTS OR CONTRIBUTORS BE LIABLE
+# FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+# DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS
+# OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
+# HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
+# LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
+# OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF
+# SUCH DAMAGE.
+#
+#
+# Create an R package in the current directory
+#
+NAME="R2pkg"
+VERS="@VERS@"
+
+USAGE="${NAME} [-DVehqv] [-E editor] [package] -- create an R package for pkgsrc"
+
+: ${CRAN_URL:=ftp://cran.r-project.org}
+: ${PKGEDITOR:=${EDITOR:=vi}}
+
+# Substituted by pkgsrc at pre-configure time.
+MAKE=@MAKE@
+ECHO=echo
+EDIT=1
+QUIET=0
+VERBOSE=0
+
+while getopts DE:Vehqv f
+do
+    case $f in
+	D) DESCRIPTION=yes;;
+	E) PKGEDITOR=${OPTARG};;
+	V) echo "${NAME} v${VERS}"; exit 0;;
+	e) EDIT=0;;
+	h) echo ${USAGE}; exit 0;;
+	q) ECHO=":"; QUIET=1;;
+	v) VERBOSE=$((${VERBOSE}+1));;
+        \?) echo ${USAGE}; exit 1;;
+    esac
+done
+shift `expr ${OPTIND} - 1`
+
+if [ ${#} -eq 0 ]; then
+    read -p "package: " RPKG TAIL
+    if [ "X${TAIL}" != "X" ]; then
+	echo "Error: multiple package names given."
+	echo ${USAGE}
+	exit 1
+    fi
+elif [ ${#} -eq 1 ]; then
+    RPKG=${1}
+else
+    echo ${USAGE}
+    exit 1
+fi
+
+if [ ${VERBOSE} -eq 0 ]; then
+    STDOUT=">/dev/null 2>&1"
+    STDOUT2=">/dev/null 2>&1"
+elif [ ${VERBOSE} -eq 1 ]; then
+    STDOUT=""
+    STDOUT2=">/dev/null 2>&1"
+else
+    STDOUT=""
+    STDOUT2=""
+fi
+
+CRAN_PACKAGES=pub/R/web/packages
+RPKG_DESCRIPTION_URL=${CRAN_URL}/${CRAN_PACKAGES}/${RPKG}/DESCRIPTION
+
+check_for_R ()
+{
+    R_CMD="R --no-save ${STDOUT2}"
+    echo "q()" | eval ${R_CMD}
+    if [ ${?} -ne 0 ]; then
+	echo "ERROR: math/R package is not installed."
+	exit 1
+    fi
+}
+
+preserve_original_files ()
+{
+    [ -f DESCR ]    && mv DESCR DESCR.orig
+    [ -f Makefile ] && mv Makefile Makefile.orig
+    [ -f distinfo ] && mv distinfo distinfo.orig
+}
+
+make_package ()
+{
+    R_CMD="R --no-save ${STDOUT2}"
+    [ "X${DESCRIPTION}" != "X" ] && DESCRIPTION_CMD="copy.description(connection)"
+    cat << EOF | eval ${R_CMD}
+one.line <- function(s) gsub(' *\n *',' ',s)
+pkg.vers <- function(s) gsub('_','.',s)
+field <- function(key,value) paste(key,'=\t',value,sep='')
+
+licenses <- list()
+licenses[['ACM']]           <- 'acm-license'
+licenses[['APACHE']]        <- 'apache-2.0'
+licenses[['ARTISTIC']]      <- 'artistic-2.0'
+licenses[['BSD-2']]         <- '2-clause-bsd'
+licenses[['GPL-2']]         <- 'gnu-gpl-v2'
+licenses[['GPL-3']]         <- 'gnu-gpl-v3'
+licenses[['GPL (>= 2)']]    <- 'gnu-gpl-v2'
+licenses[['GPL-2 | GPL-3']] <- 'gnu-gpl-v2 OR gnu-gpl-v3'
+licenses[['LGPL-2']]        <- 'gnu-lgpl-v2'
+licenses[['LGPL-2.1']]      <- 'gnu-lgpl-v2.1'
+licenses[['LGPL (>= 2)']]   <- 'gnu-lgpl-v2'
+licenses[['LUCENT']]        <- 'lucent'
+licenses[['MIT']]           <- 'mit'
+licenses[['POSTGRESQL']]    <- 'postgresql-license'
+
+paste2 <- function(s1,s2)
+{
+  if (is.na(s1) && is.na(s2)) return ('')
+  if (is.na(s1) && !is.na(s2)) return (s2)
+  if (!is.na(s1) && is.na(s2)) return (s1)
+  if (!is.na(s1) && !is.na(s2)) return (paste(s1,s2))
+}
+
+todo.license <- function(s)
+{
+  if (is.null(licenses[[s]]))
+    todo <- '# TODO: LICENSE'
+  else
+    todo <- 'LICENSE'
+  todo
+}
+
+pkgsrc.license <- function(s)
+{
+  license <- licenses[[s]]
+  if (is.null(license))
+    license <- s
+  license
+}
+
+package <- function(s) field('R_PKGNAME',one.line(s))
+version <- function(s) field('R_PKGVER',one.line(s))
+comment <- function(s) field('COMMENT',one.line(s))
+license <- function(s) field(todo.license(s),pkgsrc.license(s))
+
+categories <- function() paste('CATEGORIES=',paste(basename(dirname(getwd())),'R'),sep='	')
+description <- function(s) strwrap(s,width=71)
+
+depends <- function(s1,s2)
+{
+  s <- paste2(s1,s2)
+  imports <- na.omit(strsplit(one.line(s),', *')[[1]])
+  DEPENDS <- ''
+  if (length(imports) > 0)
+    {
+      for (i in 1:length(imports))
+        {
+          dependency <- strsplit(imports[i],' *\\\\( *')[[1]]
+          depends <- dependency[1]
+          depends.vers <- ifelse(length(dependency) == 2, dependency[2], '>=???')
+          depends.vers <- gsub(' ','',depends.vers)
+          depends.vers <- pkg.vers(gsub('\\\\)','',depends.vers))
+          depends.line <- paste('# DEPENDS+=\tR-',depends,depends.vers,':../../CATEGORY/R-',depends,sep='')
+          DEPENDS <- paste(DEPENDS,depends.line,sep='\n')
+        }
+      DEPENDS <- paste(DEPENDS,'',sep='\n')
+    }
+  DEPENDS
+}
+
+copy.description <- function(connection)
+{
+  description <- readLines(connection)
+  writeLines(description,con='DESCRIPTION')
+}
+
+connection <- url('${RPKG_DESCRIPTION_URL}')
+${DESCRIPTION_CMD}
+metadata <- read.dcf(connection, fields=c('Package','Version','Title','Description','License','Imports','Depends'))
+
+CVS          <- '# \$NetBSD\$'
+CATEGORIES   <- categories()
+MASTER.SITES <- 'MASTER_SITES=	\${MASTER_SITE_R_CRAN:=contrib/}'
+MAINTAINER   <- 'MAINTAINER=	pkgsrc-users@NetBSD.org'
+HOMEPAGE     <- 'HOMEPAGE=	\${R_HOMEPAGE_BASE}/${RPKG}/'
+COMMENT      <- comment(metadata[3])
+LICENSE      <- license(metadata[5])
+R_PKGNAME    <- package(metadata[1])
+R_PKGVER     <- version(metadata[2])
+DEPENDS      <- depends(metadata[6],metadata[7])
+INCLUDE.R    <- '.include "../../math/R/Makefile.extension"'
+INCLUDE.PKG  <- '.include "../../mk/bsd.pkg.mk"'
+
+DESCR        <- description(metadata[4])
+
+Makefile <- paste(CVS,
+                  '',
+                  CATEGORIES,
+                  MASTER.SITES,
+                  '',
+                  MAINTAINER,
+                  HOMEPAGE,
+                  COMMENT,
+                  LICENSE,
+                  '',
+                  R_PKGNAME,
+                  R_PKGVER,
+                  DEPENDS,
+                  INCLUDE.R,
+                  INCLUDE.PKG,
+                  sep='\n')
+
+write(Makefile,'Makefile')
+write(DESCR,'DESCR')
+EOF
+    if [ ${?} -ne 0 ]; then
+	echo "ERROR: parsing metadata failed."
+	exit 1
+    fi
+}
+
+edit_Makefile ()
+{
+    [ ${EDIT} -eq 0 ] || ${PKGEDITOR} Makefile
+}
+
+edit_DESCR ()
+{
+    [ ${EDIT} -eq 0 ] || ${PKGEDITOR} DESCR
+}
+
+create_distinfo ()
+{
+    ${ECHO} "Fetching package ... "
+    MAKE_CMD="${MAKE} makesum ${STDOUT}"
+    eval ${MAKE_CMD}
+}
+
+extract ()
+{
+    ${ECHO} "Extracting package ... "
+    MAKE_CMD="${MAKE} extract ${STDOUT}"
+    eval ${MAKE_CMD}
+}
+
+cleanup ()
+{
+    if [ -f DESCR.orig ] && cmp -s DESCR.orig DESCR; then
+	mv DESCR.orig DESCR
+    fi
+    if [ -f Makefile.orig ] && cmp -s Makefile.orig Makefile; then
+	mv Makefile.orig Makefile
+    fi
+    if [ -f distinfo.orig ] && cmp -s distinfo.orig distinfo; then
+	mv distinfo.orig distinfo
+    fi
+}
+
+messages ()
+{
+    if [ ${QUIET} -eq 0 ]; then
+	cat << EOF
+Please do not forget the following:
+- check DESCR and edit as necessary.
+- check Makefile:
+  o verify the COMMENT.
+  o verify the LICENSE.
+  o verify the DEPENDS, especially the categories.
+EOF
+	[ "X${DESCRIPTION}" != "X" ] && echo "- remove DESCRIPTION."
+    fi
+}
+
+${ECHO} "Creating R package: ${RPKG} ... "
+check_for_R
+preserve_original_files
+make_package
+edit_Makefile
+edit_DESCR
+create_distinfo
+extract
+cleanup
+messages