--- /dev/null
+Revision history for Perl extension Statistics::R.
+
+0.24 2011-11-09
+ - Require Text::Balanced >= 0.97 to prevent bad surprises (reported by Ryan Golhar)
+
+0.23 2011-10-28
+ - Arrays of number-containing strings are now handled properly (RT bug
+ #71988, patch by dheiman)
+
+0.22 2011-10-09
+ - The run() method now accepts an array of strings as input
+ - New run_from_file() method to read and execute commands from an R file
+ - Better detection of R errors by using the R exception system (issue
+ reported by Mike Imelfort)
+ - Updated error handling mechanism to detect R syntax errors in addition
+ to R runtime errors
+ - Tests now work for different locales (issue reported by Knut Behrends)
+
+0.21 2011-09-04
+ - Tweaked the regular expressions that parse the R output stream for added
+ speed and robustness
+
+0.20 2011-08-31
+ - Refactored the entire R communication bridge to avoid writing and reading
+ files. All data is now stored in memory and passed by pipes. This fixes
+ bug RT #11309, #11918, #66190 and #70314
+ - Refactored the communications in shared mode
+ - Put platform-specific code and legacy code in separate modules
+
+0.10 2011-08-27
+ - Refactoring to remove old code doing platform-specific operations.
+ - Lots of code cleanup
+ - Removed the now useless r_dir and tmp_dir options of new()
+ - Fix for change of dir bug (RT #6724). Also fixes missing synopsis file (RT #70307)
+ - More subtle cleanup procedure (RT #70392)
+
+0.09 2011-08-23
+ - Changes in the new() method:
+ * it automatically calls start()
+ * it has the 'shared' option to start a shared bridge
+ - More portable filenames (RT #70391)
+ - Added convenience methods:
+ * run() replaces send() and read() and checks for errors (RT #70361)
+ * get() fetches the values in an R vector (RT #70361)
+ * set() assigns values to an R vector
+ - Fixed a bug in the unlock() method
+ - Removed the R() and error() methods and renamed some other. These changes
+ should be transparent and backward compatible
+ - Maintenance: many more unit tests, synopsis clarification, POD work, script
+ touchups, small code cleanups, version numbering, better README generation,
+ Git and bug tracker URLs
+
+0.08 2011-03-01
+ - Pass options in new() to Statistics::R::Bridge constructor (RT #63906)
+
+0.07 2010-11-08
+ - Tidy up SYNOPSIS (RT #62776)
+ - Fix undef warning on Win32 (RT #62776)
+ - Fix is_started() method (RT #62776)
+
+0.06 2010-09-17
+ - Fix error() when used as an accessor (RT #61335)
+ - Silence DESTROY() when R is not found
+ - Fix "uninitialized value" warning in read_processR() (RT #61414)
+
+0.05 2010-09-13
+ - Major code refactor:
+ - strict + warnings wherever possible
+ - Removed some layers of abstraction
+ - Win32/Linux classes are now simple subs
+ - Basic syntax tidying
+ - POD fix, plus pod test
+ - Skip tests if R is not available
+
+0.04 2010-08-28
+ - Basic code cleanup with the intention of doing major refactoring by-and-by
+ - Fix the test suite
+
+0.03 2008-08-16
+ - Fixed RT Bug #23948: bug in Statistics::R
+ - Fixed --gui
+ - RT Bug #17925: R --slave --vanilla --gui=none is now R --slave --vanilla --gui=X11
+ - RT Bug #20515: Fwd: Delivery Status Notification (Failure)
+ - RT Bug #14324: error message with recent versions of R
+ We used the patch from barry.moore since it correctly identifies that we probably
+ don't want the GUI.
+ - Fixed RT Bug #17956: Win32: log_dir is not in tmp_dir by default as advertised
+
+0.02 2004-02-23
+ - Just minor changes and POD fix.
+
+0.01 2004-01-29 23:04:46
+ - original version;
+
--- /dev/null
+Changes
+inc/Module/Install.pm
+inc/Module/Install/Base.pm
+inc/Module/Install/Can.pm
+inc/Module/Install/External.pm
+inc/Module/Install/Fetch.pm
+inc/Module/Install/Makefile.pm
+inc/Module/Install/Metadata.pm
+inc/Module/Install/Win32.pm
+inc/Module/Install/WriteAll.pm
+lib/Statistics/R.pm
+lib/Statistics/R/Legacy.pm
+lib/Statistics/R/Win32.pm
+Makefile.PL
+MANIFEST This list of files
+META.yml
+README
+t/00-load.t
+t/01-pod.t
+t/02-legacy.t
+t/03-run.t
+t/04-start-stop.t
+t/05-shared.t
+t/06-get-set.t
+t/07-robust.t
+t/08-errors.t
+t/data/script.R
--- /dev/null
+---
+abstract: 'Perl interface with the R statistical program'
+author:
+ - 'Florent Angly <florent.angly@gmail.com> (2011 rewrite)'
+build_requires:
+ ExtUtils::MakeMaker: 6.56
+ Test::More: 0.47
+configure_requires:
+ ExtUtils::MakeMaker: 6.56
+distribution_type: module
+dynamic_config: 1
+generated_by: 'Module::Install version 1.04'
+license: perl
+meta-spec:
+ url: http://module-build.sourceforge.net/META-spec-v1.4.html
+ version: 1.4
+name: Statistics-R
+no_index:
+ directory:
+ - inc
+ - t
+requires:
+ IPC::Run: 0
+ Regexp::Common: 0
+ Text::Balanced: 1.97
+ perl: 5.6.0
+resources:
+ bugtracker: http://rt.cpan.org/Dist/Display.html?Name=Statistics-R
+ homepage: http://search.cpan.org/search?query=statistics%3A%3AR&mode=dist
+ license: http://dev.perl.org/licenses/
+ repository: git@github.com:bricas/statistics-r.git
+version: 0.24
--- /dev/null
+use strict;
+use warnings;
+
+use inc::Module::Install;
+
+use lib 'lib';
+if ( $^O =~ m/^(?:.*?win32|dos)$/i ) {
+ require Statistics::R::Win32;
+}
+
+
+name 'Statistics-R';
+all_from 'lib/Statistics/R.pm';
+
+resources
+ homepage 'http://search.cpan.org/search?query=statistics%3A%3AR&mode=dist';
+ bugtracker 'http://rt.cpan.org/Dist/Display.html?Name=Statistics-R';
+ repository 'git@github.com:bricas/statistics-r.git';
+
+build_requires 'Test::More' => '0.47';
+
+requires 'Text::Balanced' => '1.97';
+requires 'Regexp::Common' => '0';
+requires 'IPC::Run' => '0';
+
+requires_external_bin 'R';
+
+WriteAll;
+
+if ( -e 'MANIFEST.SKIP' ) {
+ generate_readme( 'lib/Statistics/R.pm', 'README' );
+}
+
+
+
+sub generate_readme {
+ my ($in, $out) = @_;
+ `pod2text $in $out`;
+ warn "Warning: Could not generate $out.\n$!\n" if $? == -1;
+ return $?; # exit status
+}
--- /dev/null
+NAME
+ Statistics::R - Perl interface with the R statistical program
+
+DESCRIPTION
+ *Statistics::R* is a module to controls the R interpreter (R project for
+ statistical computing: <http://www.r-project.org/>). It lets you start
+ R, pass commands to it and retrieve the output. A shared mode allow to
+ have several instances of *Statistics::R* talk to the same R process.
+
+ The current *Statistics::R* implementation uses pipes (for stdin, stdout
+ and and stderr) to communicate with R. This implementation should be
+ more efficient and reliable than that in previous version, which relied
+ on reading and writing files. As before, this module works on GNU/Linux,
+ MS Windows and probably many more systems.
+
+SYNOPSIS
+ use Statistics::R;
+
+ # Create a communication bridge with R and start R
+ my $R = Statistics::R->new();
+
+ # Run simple R commands
+ my $output_file = "file.ps";
+ $R->run(qq`postscript("$output_file" , horizontal=FALSE , width=500 , height=500 , pointsize=1)`);
+ $R->run(q`plot(c(1, 5, 10), type = "l")`);
+ $R->run(q`dev.off()`);
+
+ # Pass and retrieve data (scalars or arrays)
+ my $input_value = 1;
+ $R->set('x', $input_value);
+ $R->run(q`y <- x^2`);
+ my $output_value = $R->get('y');
+ print "y = $output_value\n";
+
+ $R->stop();
+
+METHODS
+ new()
+ Build a *Statistics::R* bridge object between Perl and R. Available
+ options are:
+
+ r_bin
+ Specify the full path to R if it is not automatically found. See
+ INSTALLATION.
+
+ shared
+ Start a shared bridge. When using a shared bridge, several
+ instances of Statistics::R can communicate with the same unique
+ R instance. Example:
+
+ use Statistics::R;
+
+ my $R1 = Statistics::R->new( shared => 1);
+ my $R2 = Statistics::R->new( shared => 1);
+
+ $R1->set( 'x', 'pear' );
+ my $x = $R2->get( 'x' );
+ print "x = $x\n";
+
+ Do not call the *stop()* method is you still have processes that
+ need to interact with R.
+
+ run()
+ First, start() R if it is not yet running. Then, execute R commands
+ passed as a string and return the output as a string. If your
+ command fails to run in R, an error message will be displayed.
+
+ Example:
+
+ my $out = $R->run( q`print( 1 + 2 )` );
+
+ If you intend on runnning many R commands, it may be convenient to
+ pass an array of commands or put multiple commands in an here-doc:
+
+ # Array of R commands:
+ my $out1 = $R->run(
+ q`a <- 2`,
+ q`b <- 5`,
+ q`c <- a * b`,
+ q`print("ok")`
+ );
+
+ # Here-doc with multiple R commands:
+ my $cmds = <<EOF;
+ a <- 2
+ b <- 5
+ c <- a * b
+ print('ok')
+ EOF
+ my $out2 = $R->run($cmds);
+
+ To run commands from a file, see the run_from_file() method.
+
+ The output you get from run() is the combination of what R would
+ display on the standard output and the standard error, but the order
+ may differ. When loading modules, some may write numerous messages
+ on standard error. You can disable this behavior using the following
+ R command:
+
+ suppressPackageStartupMessages(library(library_to_load))
+
+ run_from_file()
+ Similar to run() but reads the R commands from the specified file.
+ Internally, this method uses the R source() command to read the
+ file.
+
+ set()
+ Set the value of an R variable (scalar or arrayref). Example:
+
+ $R->set( 'x', 'pear' );
+
+ or
+
+ $R->set( 'y', [1, 2, 3] );
+
+ get()
+ Get the value of an R variable (scalar or arrayref). Example:
+
+ my $x = $R->get( 'x' ); # $y is an scalar
+
+ or
+
+ my $y = $R->get( 'y' ); # $x is an arrayref
+
+ start()
+ Explicitly start R. Most times, you do not need to do that because
+ the first execution of run() or set() will automatically call
+ start().
+
+ stop()
+ Stop a running instance of R.
+
+ restart()
+ stop() and start() R.
+
+ bin()
+ Get or set the path to the R executable.
+
+ is_shared()
+ Was R started in shared mode?
+
+ is_started()
+ Is R running?
+
+ pid()
+ Return the pid of the running R process
+
+INSTALLATION
+ Since *Statistics::R* relies on R to work, you need to install R first.
+ See this page for downloads, <http://www.r-project.org/>. If R is in
+ your PATH environment variable, then it should be available from a
+ terminal and be detected automatically by *Statistics::R*. This means
+ that you don't have to do anything on Linux systems to get
+ *Statistics::R* working. On Windows systems, in addition to the folders
+ described in PATH, the usual suspects will be checked for the presence
+ of the R binary, e.g. C:\Program Files\R. If *Statistics::R* does not
+ find R installation, your last recourse is to specify its full path when
+ calling new():
+
+ my $R = Statistics::R->new( r_bin => $fullpath );
+
+ You also need to have the following CPAN Perl modules installed:
+
+ Text::Balanced (>= 1.97)
+ Regexp::Common
+ IPC::Run
+
+SEE ALSO
+ * Statistics::R::Win32
+
+ * Statistics::R::Legacy
+
+ * The R-project web site: <http://www.r-project.org/>
+
+ * Statistics:: modules for Perl:
+ <http://search.cpan.org/search?query=Statistics&mode=module>
+
+AUTHORS
+ Florent Angly <florent.angly@gmail.com> (2011 rewrite)
+
+ Graciliano M. P. <gm@virtuasites.com.br> (original code)
+
+MAINTAINER
+ Brian Cassidy <bricas@cpan.org>
+
+COPYRIGHT & LICENSE
+ This program is free software; you can redistribute it and/or modify it
+ under the same terms as Perl itself.
+
+BUGS
+ All complex software has bugs lurking in it, and this program is no
+ exception. If you find a bug, please report it on the CPAN Tracker of
+ Statistics::R: <http://rt.cpan.org/Dist/Display.html?Name=Statistics-R>
+
+ Bug reports, suggestions and patches are welcome. The Statistics::R code
+ is developed on Github (<http://github.com/bricas/statistics-r>) and is
+ under Git revision control. To get the latest revision, run:
+
+ git clone git@github.com:bricas/statistics-r.git
+
--- /dev/null
+#line 1
+package Module::Install;
+
+# For any maintainers:
+# The load order for Module::Install is a bit magic.
+# It goes something like this...
+#
+# IF ( host has Module::Install installed, creating author mode ) {
+# 1. Makefile.PL calls "use inc::Module::Install"
+# 2. $INC{inc/Module/Install.pm} set to installed version of inc::Module::Install
+# 3. The installed version of inc::Module::Install loads
+# 4. inc::Module::Install calls "require Module::Install"
+# 5. The ./inc/ version of Module::Install loads
+# } ELSE {
+# 1. Makefile.PL calls "use inc::Module::Install"
+# 2. $INC{inc/Module/Install.pm} set to ./inc/ version of Module::Install
+# 3. The ./inc/ version of Module::Install loads
+# }
+
+use 5.005;
+use strict 'vars';
+use Cwd ();
+use File::Find ();
+use File::Path ();
+
+use vars qw{$VERSION $MAIN};
+BEGIN {
+ # All Module::Install core packages now require synchronised versions.
+ # This will be used to ensure we don't accidentally load old or
+ # different versions of modules.
+ # This is not enforced yet, but will be some time in the next few
+ # releases once we can make sure it won't clash with custom
+ # Module::Install extensions.
+ $VERSION = '1.04';
+
+ # Storage for the pseudo-singleton
+ $MAIN = undef;
+
+ *inc::Module::Install::VERSION = *VERSION;
+ @inc::Module::Install::ISA = __PACKAGE__;
+
+}
+
+sub import {
+ my $class = shift;
+ my $self = $class->new(@_);
+ my $who = $self->_caller;
+
+ #-------------------------------------------------------------
+ # all of the following checks should be included in import(),
+ # to allow "eval 'require Module::Install; 1' to test
+ # installation of Module::Install. (RT #51267)
+ #-------------------------------------------------------------
+
+ # Whether or not inc::Module::Install is actually loaded, the
+ # $INC{inc/Module/Install.pm} is what will still get set as long as
+ # the caller loaded module this in the documented manner.
+ # If not set, the caller may NOT have loaded the bundled version, and thus
+ # they may not have a MI version that works with the Makefile.PL. This would
+ # result in false errors or unexpected behaviour. And we don't want that.
+ my $file = join( '/', 'inc', split /::/, __PACKAGE__ ) . '.pm';
+ unless ( $INC{$file} ) { die <<"END_DIE" }
+
+Please invoke ${\__PACKAGE__} with:
+
+ use inc::${\__PACKAGE__};
+
+not:
+
+ use ${\__PACKAGE__};
+
+END_DIE
+
+ # This reportedly fixes a rare Win32 UTC file time issue, but
+ # as this is a non-cross-platform XS module not in the core,
+ # we shouldn't really depend on it. See RT #24194 for detail.
+ # (Also, this module only supports Perl 5.6 and above).
+ eval "use Win32::UTCFileTime" if $^O eq 'MSWin32' && $] >= 5.006;
+
+ # If the script that is loading Module::Install is from the future,
+ # then make will detect this and cause it to re-run over and over
+ # again. This is bad. Rather than taking action to touch it (which
+ # is unreliable on some platforms and requires write permissions)
+ # for now we should catch this and refuse to run.
+ if ( -f $0 ) {
+ my $s = (stat($0))[9];
+
+ # If the modification time is only slightly in the future,
+ # sleep briefly to remove the problem.
+ my $a = $s - time;
+ if ( $a > 0 and $a < 5 ) { sleep 5 }
+
+ # Too far in the future, throw an error.
+ my $t = time;
+ if ( $s > $t ) { die <<"END_DIE" }
+
+Your installer $0 has a modification time in the future ($s > $t).
+
+This is known to create infinite loops in make.
+
+Please correct this, then run $0 again.
+
+END_DIE
+ }
+
+
+ # Build.PL was formerly supported, but no longer is due to excessive
+ # difficulty in implementing every single feature twice.
+ if ( $0 =~ /Build.PL$/i ) { die <<"END_DIE" }
+
+Module::Install no longer supports Build.PL.
+
+It was impossible to maintain duel backends, and has been deprecated.
+
+Please remove all Build.PL files and only use the Makefile.PL installer.
+
+END_DIE
+
+ #-------------------------------------------------------------
+
+ # To save some more typing in Module::Install installers, every...
+ # use inc::Module::Install
+ # ...also acts as an implicit use strict.
+ $^H |= strict::bits(qw(refs subs vars));
+
+ #-------------------------------------------------------------
+
+ unless ( -f $self->{file} ) {
+ foreach my $key (keys %INC) {
+ delete $INC{$key} if $key =~ /Module\/Install/;
+ }
+
+ local $^W;
+ require "$self->{path}/$self->{dispatch}.pm";
+ File::Path::mkpath("$self->{prefix}/$self->{author}");
+ $self->{admin} = "$self->{name}::$self->{dispatch}"->new( _top => $self );
+ $self->{admin}->init;
+ @_ = ($class, _self => $self);
+ goto &{"$self->{name}::import"};
+ }
+
+ local $^W;
+ *{"${who}::AUTOLOAD"} = $self->autoload;
+ $self->preload;
+
+ # Unregister loader and worker packages so subdirs can use them again
+ delete $INC{'inc/Module/Install.pm'};
+ delete $INC{'Module/Install.pm'};
+
+ # Save to the singleton
+ $MAIN = $self;
+
+ return 1;
+}
+
+sub autoload {
+ my $self = shift;
+ my $who = $self->_caller;
+ my $cwd = Cwd::cwd();
+ my $sym = "${who}::AUTOLOAD";
+ $sym->{$cwd} = sub {
+ my $pwd = Cwd::cwd();
+ if ( my $code = $sym->{$pwd} ) {
+ # Delegate back to parent dirs
+ goto &$code unless $cwd eq $pwd;
+ }
+ unless ($$sym =~ s/([^:]+)$//) {
+ # XXX: it looks like we can't retrieve the missing function
+ # via $$sym (usually $main::AUTOLOAD) in this case.
+ # I'm still wondering if we should slurp Makefile.PL to
+ # get some context or not ...
+ my ($package, $file, $line) = caller;
+ die <<"EOT";
+Unknown function is found at $file line $line.
+Execution of $file aborted due to runtime errors.
+
+If you're a contributor to a project, you may need to install
+some Module::Install extensions from CPAN (or other repository).
+If you're a user of a module, please contact the author.
+EOT
+ }
+ my $method = $1;
+ if ( uc($method) eq $method ) {
+ # Do nothing
+ return;
+ } elsif ( $method =~ /^_/ and $self->can($method) ) {
+ # Dispatch to the root M:I class
+ return $self->$method(@_);
+ }
+
+ # Dispatch to the appropriate plugin
+ unshift @_, ( $self, $1 );
+ goto &{$self->can('call')};
+ };
+}
+
+sub preload {
+ my $self = shift;
+ unless ( $self->{extensions} ) {
+ $self->load_extensions(
+ "$self->{prefix}/$self->{path}", $self
+ );
+ }
+
+ my @exts = @{$self->{extensions}};
+ unless ( @exts ) {
+ @exts = $self->{admin}->load_all_extensions;
+ }
+
+ my %seen;
+ foreach my $obj ( @exts ) {
+ while (my ($method, $glob) = each %{ref($obj) . '::'}) {
+ next unless $obj->can($method);
+ next if $method =~ /^_/;
+ next if $method eq uc($method);
+ $seen{$method}++;
+ }
+ }
+
+ my $who = $self->_caller;
+ foreach my $name ( sort keys %seen ) {
+ local $^W;
+ *{"${who}::$name"} = sub {
+ ${"${who}::AUTOLOAD"} = "${who}::$name";
+ goto &{"${who}::AUTOLOAD"};
+ };
+ }
+}
+
+sub new {
+ my ($class, %args) = @_;
+
+ delete $INC{'FindBin.pm'};
+ {
+ # to suppress the redefine warning
+ local $SIG{__WARN__} = sub {};
+ require FindBin;
+ }
+
+ # ignore the prefix on extension modules built from top level.
+ my $base_path = Cwd::abs_path($FindBin::Bin);
+ unless ( Cwd::abs_path(Cwd::cwd()) eq $base_path ) {
+ delete $args{prefix};
+ }
+ return $args{_self} if $args{_self};
+
+ $args{dispatch} ||= 'Admin';
+ $args{prefix} ||= 'inc';
+ $args{author} ||= ($^O eq 'VMS' ? '_author' : '.author');
+ $args{bundle} ||= 'inc/BUNDLES';
+ $args{base} ||= $base_path;
+ $class =~ s/^\Q$args{prefix}\E:://;
+ $args{name} ||= $class;
+ $args{version} ||= $class->VERSION;
+ unless ( $args{path} ) {
+ $args{path} = $args{name};
+ $args{path} =~ s!::!/!g;
+ }
+ $args{file} ||= "$args{base}/$args{prefix}/$args{path}.pm";
+ $args{wrote} = 0;
+
+ bless( \%args, $class );
+}
+
+sub call {
+ my ($self, $method) = @_;
+ my $obj = $self->load($method) or return;
+ splice(@_, 0, 2, $obj);
+ goto &{$obj->can($method)};
+}
+
+sub load {
+ my ($self, $method) = @_;
+
+ $self->load_extensions(
+ "$self->{prefix}/$self->{path}", $self
+ ) unless $self->{extensions};
+
+ foreach my $obj (@{$self->{extensions}}) {
+ return $obj if $obj->can($method);
+ }
+
+ my $admin = $self->{admin} or die <<"END_DIE";
+The '$method' method does not exist in the '$self->{prefix}' path!
+Please remove the '$self->{prefix}' directory and run $0 again to load it.
+END_DIE
+
+ my $obj = $admin->load($method, 1);
+ push @{$self->{extensions}}, $obj;
+
+ $obj;
+}
+
+sub load_extensions {
+ my ($self, $path, $top) = @_;
+
+ my $should_reload = 0;
+ unless ( grep { ! ref $_ and lc $_ eq lc $self->{prefix} } @INC ) {
+ unshift @INC, $self->{prefix};
+ $should_reload = 1;
+ }
+
+ foreach my $rv ( $self->find_extensions($path) ) {
+ my ($file, $pkg) = @{$rv};
+ next if $self->{pathnames}{$pkg};
+
+ local $@;
+ my $new = eval { local $^W; require $file; $pkg->can('new') };
+ unless ( $new ) {
+ warn $@ if $@;
+ next;
+ }
+ $self->{pathnames}{$pkg} =
+ $should_reload ? delete $INC{$file} : $INC{$file};
+ push @{$self->{extensions}}, &{$new}($pkg, _top => $top );
+ }
+
+ $self->{extensions} ||= [];
+}
+
+sub find_extensions {
+ my ($self, $path) = @_;
+
+ my @found;
+ File::Find::find( sub {
+ my $file = $File::Find::name;
+ return unless $file =~ m!^\Q$path\E/(.+)\.pm\Z!is;
+ my $subpath = $1;
+ return if lc($subpath) eq lc($self->{dispatch});
+
+ $file = "$self->{path}/$subpath.pm";
+ my $pkg = "$self->{name}::$subpath";
+ $pkg =~ s!/!::!g;
+
+ # If we have a mixed-case package name, assume case has been preserved
+ # correctly. Otherwise, root through the file to locate the case-preserved
+ # version of the package name.
+ if ( $subpath eq lc($subpath) || $subpath eq uc($subpath) ) {
+ my $content = Module::Install::_read($subpath . '.pm');
+ my $in_pod = 0;
+ foreach ( split //, $content ) {
+ $in_pod = 1 if /^=\w/;
+ $in_pod = 0 if /^=cut/;
+ next if ($in_pod || /^=cut/); # skip pod text
+ next if /^\s*#/; # and comments
+ if ( m/^\s*package\s+($pkg)\s*;/i ) {
+ $pkg = $1;
+ last;
+ }
+ }
+ }
+
+ push @found, [ $file, $pkg ];
+ }, $path ) if -d $path;
+
+ @found;
+}
+
+
+
+
+
+#####################################################################
+# Common Utility Functions
+
+sub _caller {
+ my $depth = 0;
+ my $call = caller($depth);
+ while ( $call eq __PACKAGE__ ) {
+ $depth++;
+ $call = caller($depth);
+ }
+ return $call;
+}
+
+# Done in evals to avoid confusing Perl::MinimumVersion
+eval( $] >= 5.006 ? <<'END_NEW' : <<'END_OLD' ); die $@ if $@;
+sub _read {
+ local *FH;
+ open( FH, '<', $_[0] ) or die "open($_[0]): $!";
+ my $string = do { local $/; <FH> };
+ close FH or die "close($_[0]): $!";
+ return $string;
+}
+END_NEW
+sub _read {
+ local *FH;
+ open( FH, "< $_[0]" ) or die "open($_[0]): $!";
+ my $string = do { local $/; <FH> };
+ close FH or die "close($_[0]): $!";
+ return $string;
+}
+END_OLD
+
+sub _readperl {
+ my $string = Module::Install::_read($_[0]);
+ $string =~ s/(?:\015{1,2}\012|\015|\012)/\n/sg;
+ $string =~ s/(\n)\n*__(?:DATA|END)__\b.*\z/$1/s;
+ $string =~ s/\n\n=\w+.+?\n\n=cut\b.+?\n+/\n\n/sg;
+ return $string;
+}
+
+sub _readpod {
+ my $string = Module::Install::_read($_[0]);
+ $string =~ s/(?:\015{1,2}\012|\015|\012)/\n/sg;
+ return $string if $_[0] =~ /\.pod\z/;
+ $string =~ s/(^|\n=cut\b.+?\n+)[^=\s].+?\n(\n=\w+|\z)/$1$2/sg;
+ $string =~ s/\n*=pod\b[^\n]*\n+/\n\n/sg;
+ $string =~ s/\n*=cut\b[^\n]*\n+/\n\n/sg;
+ $string =~ s/^\n+//s;
+ return $string;
+}
+
+# Done in evals to avoid confusing Perl::MinimumVersion
+eval( $] >= 5.006 ? <<'END_NEW' : <<'END_OLD' ); die $@ if $@;
+sub _write {
+ local *FH;
+ open( FH, '>', $_[0] ) or die "open($_[0]): $!";
+ foreach ( 1 .. $#_ ) {
+ print FH $_[$_] or die "print($_[0]): $!";
+ }
+ close FH or die "close($_[0]): $!";
+}
+END_NEW
+sub _write {
+ local *FH;
+ open( FH, "> $_[0]" ) or die "open($_[0]): $!";
+ foreach ( 1 .. $#_ ) {
+ print FH $_[$_] or die "print($_[0]): $!";
+ }
+ close FH or die "close($_[0]): $!";
+}
+END_OLD
+
+# _version is for processing module versions (eg, 1.03_05) not
+# Perl versions (eg, 5.8.1).
+sub _version ($) {
+ my $s = shift || 0;
+ my $d =()= $s =~ /(\.)/g;
+ if ( $d >= 2 ) {
+ # Normalise multipart versions
+ $s =~ s/(\.)(\d{1,3})/sprintf("$1%03d",$2)/eg;
+ }
+ $s =~ s/^(\d+)\.?//;
+ my $l = $1 || 0;
+ my @v = map {
+ $_ . '0' x (3 - length $_)
+ } $s =~ /(\d{1,3})\D?/g;
+ $l = $l . '.' . join '', @v if @v;
+ return $l + 0;
+}
+
+sub _cmp ($$) {
+ _version($_[1]) <=> _version($_[2]);
+}
+
+# Cloned from Params::Util::_CLASS
+sub _CLASS ($) {
+ (
+ defined $_[0]
+ and
+ ! ref $_[0]
+ and
+ $_[0] =~ m/^[^\W\d]\w*(?:::\w+)*\z/s
+ ) ? $_[0] : undef;
+}
+
+1;
+
+# Copyright 2008 - 2011 Adam Kennedy.
--- /dev/null
+#line 1
+package Module::Install::Base;
+
+use strict 'vars';
+use vars qw{$VERSION};
+BEGIN {
+ $VERSION = '1.04';
+}
+
+# Suspend handler for "redefined" warnings
+BEGIN {
+ my $w = $SIG{__WARN__};
+ $SIG{__WARN__} = sub { $w };
+}
+
+#line 42
+
+sub new {
+ my $class = shift;
+ unless ( defined &{"${class}::call"} ) {
+ *{"${class}::call"} = sub { shift->_top->call(@_) };
+ }
+ unless ( defined &{"${class}::load"} ) {
+ *{"${class}::load"} = sub { shift->_top->load(@_) };
+ }
+ bless { @_ }, $class;
+}
+
+#line 61
+
+sub AUTOLOAD {
+ local $@;
+ my $func = eval { shift->_top->autoload } or return;
+ goto &$func;
+}
+
+#line 75
+
+sub _top {
+ $_[0]->{_top};
+}
+
+#line 90
+
+sub admin {
+ $_[0]->_top->{admin}
+ or
+ Module::Install::Base::FakeAdmin->new;
+}
+
+#line 106
+
+sub is_admin {
+ ! $_[0]->admin->isa('Module::Install::Base::FakeAdmin');
+}
+
+sub DESTROY {}
+
+package Module::Install::Base::FakeAdmin;
+
+use vars qw{$VERSION};
+BEGIN {
+ $VERSION = $Module::Install::Base::VERSION;
+}
+
+my $fake;
+
+sub new {
+ $fake ||= bless(\@_, $_[0]);
+}
+
+sub AUTOLOAD {}
+
+sub DESTROY {}
+
+# Restore warning handler
+BEGIN {
+ $SIG{__WARN__} = $SIG{__WARN__}->();
+}
+
+1;
+
+#line 159
--- /dev/null
+#line 1
+package Module::Install::Can;
+
+use strict;
+use Config ();
+use File::Spec ();
+use ExtUtils::MakeMaker ();
+use Module::Install::Base ();
+
+use vars qw{$VERSION @ISA $ISCORE};
+BEGIN {
+ $VERSION = '1.04';
+ @ISA = 'Module::Install::Base';
+ $ISCORE = 1;
+}
+
+# check if we can load some module
+### Upgrade this to not have to load the module if possible
+sub can_use {
+ my ($self, $mod, $ver) = @_;
+ $mod =~ s{::|\\}{/}g;
+ $mod .= '.pm' unless $mod =~ /\.pm$/i;
+
+ my $pkg = $mod;
+ $pkg =~ s{/}{::}g;
+ $pkg =~ s{\.pm$}{}i;
+
+ local $@;
+ eval { require $mod; $pkg->VERSION($ver || 0); 1 };
+}
+
+# check if we can run some command
+sub can_run {
+ my ($self, $cmd) = @_;
+
+ my $_cmd = $cmd;
+ return $_cmd if (-x $_cmd or $_cmd = MM->maybe_command($_cmd));
+
+ for my $dir ((split /$Config::Config{path_sep}/, $ENV{PATH}), '.') {
+ next if $dir eq '';
+ my $abs = File::Spec->catfile($dir, $_[1]);
+ return $abs if (-x $abs or $abs = MM->maybe_command($abs));
+ }
+
+ return;
+}
+
+# can we locate a (the) C compiler
+sub can_cc {
+ my $self = shift;
+ my @chunks = split(/ /, $Config::Config{cc}) or return;
+
+ # $Config{cc} may contain args; try to find out the program part
+ while (@chunks) {
+ return $self->can_run("@chunks") || (pop(@chunks), next);
+ }
+
+ return;
+}
+
+# Fix Cygwin bug on maybe_command();
+if ( $^O eq 'cygwin' ) {
+ require ExtUtils::MM_Cygwin;
+ require ExtUtils::MM_Win32;
+ if ( ! defined(&ExtUtils::MM_Cygwin::maybe_command) ) {
+ *ExtUtils::MM_Cygwin::maybe_command = sub {
+ my ($self, $file) = @_;
+ if ($file =~ m{^/cygdrive/}i and ExtUtils::MM_Win32->can('maybe_command')) {
+ ExtUtils::MM_Win32->maybe_command($file);
+ } else {
+ ExtUtils::MM_Unix->maybe_command($file);
+ }
+ }
+ }
+}
+
+1;
+
+__END__
+
+#line 156
--- /dev/null
+#line 1
+package Module::Install::External;
+
+# Provides dependency declarations for external non-Perl things
+
+use strict;
+use Module::Install::Base ();
+
+use vars qw{$VERSION $ISCORE @ISA};
+BEGIN {
+ $VERSION = '1.04';
+ $ISCORE = 1;
+ @ISA = qw{Module::Install::Base};
+}
+
+sub requires_external_cc {
+ my $self = shift;
+
+ # We need a C compiler, use the can_cc method for this
+ unless ( $self->can_cc ) {
+ print "Unresolvable missing external dependency.\n";
+ print "This package requires a C compiler.\n";
+ print STDERR "NA: Unable to build distribution on this platform.\n";
+ exit(0);
+ }
+
+ # Unlike some of the other modules, while we need to specify a
+ # C compiler as a dep, it needs to be a build-time dependency.
+
+ 1;
+}
+
+sub requires_external_bin {
+ my ($self, $bin, $version) = @_;
+ if ( $version ) {
+ die "requires_external_bin does not support versions yet";
+ }
+
+ # Load the package containing can_run early,
+ # to avoid breaking the message below.
+ $self->load('can_run');
+
+ # Locate the bin
+ print "Locating bin:$bin...";
+ my $found_bin = $self->can_run( $bin );
+ if ( $found_bin ) {
+ print " found at $found_bin.\n";
+ } else {
+ print " missing.\n";
+ print "Unresolvable missing external dependency.\n";
+ print "Please install '$bin' seperately and try again.\n";
+ print STDERR "NA: Unable to build distribution on this platform.\n";
+ exit(0);
+ }
+
+ # Once we have some way to specify external deps, do it here.
+ # In the mean time, continue as normal.
+
+ 1;
+}
+
+1;
+
+__END__
+
+#line 138
--- /dev/null
+#line 1
+package Module::Install::Fetch;
+
+use strict;
+use Module::Install::Base ();
+
+use vars qw{$VERSION @ISA $ISCORE};
+BEGIN {
+ $VERSION = '1.04';
+ @ISA = 'Module::Install::Base';
+ $ISCORE = 1;
+}
+
+sub get_file {
+ my ($self, %args) = @_;
+ my ($scheme, $host, $path, $file) =
+ $args{url} =~ m|^(\w+)://([^/]+)(.+)/(.+)| or return;
+
+ if ( $scheme eq 'http' and ! eval { require LWP::Simple; 1 } ) {
+ $args{url} = $args{ftp_url}
+ or (warn("LWP support unavailable!\n"), return);
+ ($scheme, $host, $path, $file) =
+ $args{url} =~ m|^(\w+)://([^/]+)(.+)/(.+)| or return;
+ }
+
+ $|++;
+ print "Fetching '$file' from $host... ";
+
+ unless (eval { require Socket; Socket::inet_aton($host) }) {
+ warn "'$host' resolve failed!\n";
+ return;
+ }
+
+ return unless $scheme eq 'ftp' or $scheme eq 'http';
+
+ require Cwd;
+ my $dir = Cwd::getcwd();
+ chdir $args{local_dir} or return if exists $args{local_dir};
+
+ if (eval { require LWP::Simple; 1 }) {
+ LWP::Simple::mirror($args{url}, $file);
+ }
+ elsif (eval { require Net::FTP; 1 }) { eval {
+ # use Net::FTP to get past firewall
+ my $ftp = Net::FTP->new($host, Passive => 1, Timeout => 600);
+ $ftp->login("anonymous", 'anonymous@example.com');
+ $ftp->cwd($path);
+ $ftp->binary;
+ $ftp->get($file) or (warn("$!\n"), return);
+ $ftp->quit;
+ } }
+ elsif (my $ftp = $self->can_run('ftp')) { eval {
+ # no Net::FTP, fallback to ftp.exe
+ require FileHandle;
+ my $fh = FileHandle->new;
+
+ local $SIG{CHLD} = 'IGNORE';
+ unless ($fh->open("|$ftp -n")) {
+ warn "Couldn't open ftp: $!\n";
+ chdir $dir; return;
+ }
+
+ my @dialog = split(/\n/, <<"END_FTP");
+open $host
+user anonymous anonymous\@example.com
+cd $path
+binary
+get $file $file
+quit
+END_FTP
+ foreach (@dialog) { $fh->print("$_\n") }
+ $fh->close;
+ } }
+ else {
+ warn "No working 'ftp' program available!\n";
+ chdir $dir; return;
+ }
+
+ unless (-f $file) {
+ warn "Fetching failed: $@\n";
+ chdir $dir; return;
+ }
+
+ return if exists $args{size} and -s $file != $args{size};
+ system($args{run}) if exists $args{run};
+ unlink($file) if $args{remove};
+
+ print(((!exists $args{check_for} or -e $args{check_for})
+ ? "done!" : "failed! ($!)"), "\n");
+ chdir $dir; return !$?;
+}
+
+1;
--- /dev/null
+#line 1
+package Module::Install::Makefile;
+
+use strict 'vars';
+use ExtUtils::MakeMaker ();
+use Module::Install::Base ();
+use Fcntl qw/:flock :seek/;
+
+use vars qw{$VERSION @ISA $ISCORE};
+BEGIN {
+ $VERSION = '1.04';
+ @ISA = 'Module::Install::Base';
+ $ISCORE = 1;
+}
+
+sub Makefile { $_[0] }
+
+my %seen = ();
+
+sub prompt {
+ shift;
+
+ # Infinite loop protection
+ my @c = caller();
+ if ( ++$seen{"$c[1]|$c[2]|$_[0]"} > 3 ) {
+ die "Caught an potential prompt infinite loop ($c[1]|$c[2]|$_[0])";
+ }
+
+ # In automated testing or non-interactive session, always use defaults
+ if ( ($ENV{AUTOMATED_TESTING} or -! -t STDIN) and ! $ENV{PERL_MM_USE_DEFAULT} ) {
+ local $ENV{PERL_MM_USE_DEFAULT} = 1;
+ goto &ExtUtils::MakeMaker::prompt;
+ } else {
+ goto &ExtUtils::MakeMaker::prompt;
+ }
+}
+
+# Store a cleaned up version of the MakeMaker version,
+# since we need to behave differently in a variety of
+# ways based on the MM version.
+my $makemaker = eval $ExtUtils::MakeMaker::VERSION;
+
+# If we are passed a param, do a "newer than" comparison.
+# Otherwise, just return the MakeMaker version.
+sub makemaker {
+ ( @_ < 2 or $makemaker >= eval($_[1]) ) ? $makemaker : 0
+}
+
+# Ripped from ExtUtils::MakeMaker 6.56, and slightly modified
+# as we only need to know here whether the attribute is an array
+# or a hash or something else (which may or may not be appendable).
+my %makemaker_argtype = (
+ C => 'ARRAY',
+ CONFIG => 'ARRAY',
+# CONFIGURE => 'CODE', # ignore
+ DIR => 'ARRAY',
+ DL_FUNCS => 'HASH',
+ DL_VARS => 'ARRAY',
+ EXCLUDE_EXT => 'ARRAY',
+ EXE_FILES => 'ARRAY',
+ FUNCLIST => 'ARRAY',
+ H => 'ARRAY',
+ IMPORTS => 'HASH',
+ INCLUDE_EXT => 'ARRAY',
+ LIBS => 'ARRAY', # ignore ''
+ MAN1PODS => 'HASH',
+ MAN3PODS => 'HASH',
+ META_ADD => 'HASH',
+ META_MERGE => 'HASH',
+ PL_FILES => 'HASH',
+ PM => 'HASH',
+ PMLIBDIRS => 'ARRAY',
+ PMLIBPARENTDIRS => 'ARRAY',
+ PREREQ_PM => 'HASH',
+ CONFIGURE_REQUIRES => 'HASH',
+ SKIP => 'ARRAY',
+ TYPEMAPS => 'ARRAY',
+ XS => 'HASH',
+# VERSION => ['version',''], # ignore
+# _KEEP_AFTER_FLUSH => '',
+
+ clean => 'HASH',
+ depend => 'HASH',
+ dist => 'HASH',
+ dynamic_lib=> 'HASH',
+ linkext => 'HASH',
+ macro => 'HASH',
+ postamble => 'HASH',
+ realclean => 'HASH',
+ test => 'HASH',
+ tool_autosplit => 'HASH',
+
+ # special cases where you can use makemaker_append
+ CCFLAGS => 'APPENDABLE',
+ DEFINE => 'APPENDABLE',
+ INC => 'APPENDABLE',
+ LDDLFLAGS => 'APPENDABLE',
+ LDFROM => 'APPENDABLE',
+);
+
+sub makemaker_args {
+ my ($self, %new_args) = @_;
+ my $args = ( $self->{makemaker_args} ||= {} );
+ foreach my $key (keys %new_args) {
+ if ($makemaker_argtype{$key}) {
+ if ($makemaker_argtype{$key} eq 'ARRAY') {
+ $args->{$key} = [] unless defined $args->{$key};
+ unless (ref $args->{$key} eq 'ARRAY') {
+ $args->{$key} = [$args->{$key}]
+ }
+ push @{$args->{$key}},
+ ref $new_args{$key} eq 'ARRAY'
+ ? @{$new_args{$key}}
+ : $new_args{$key};
+ }
+ elsif ($makemaker_argtype{$key} eq 'HASH') {
+ $args->{$key} = {} unless defined $args->{$key};
+ foreach my $skey (keys %{ $new_args{$key} }) {
+ $args->{$key}{$skey} = $new_args{$key}{$skey};
+ }
+ }
+ elsif ($makemaker_argtype{$key} eq 'APPENDABLE') {
+ $self->makemaker_append($key => $new_args{$key});
+ }
+ }
+ else {
+ if (defined $args->{$key}) {
+ warn qq{MakeMaker attribute "$key" is overriden; use "makemaker_append" to append values\n};
+ }
+ $args->{$key} = $new_args{$key};
+ }
+ }
+ return $args;
+}
+
+# For mm args that take multiple space-seperated args,
+# append an argument to the current list.
+sub makemaker_append {
+ my $self = shift;
+ my $name = shift;
+ my $args = $self->makemaker_args;
+ $args->{$name} = defined $args->{$name}
+ ? join( ' ', $args->{$name}, @_ )
+ : join( ' ', @_ );
+}
+
+sub build_subdirs {
+ my $self = shift;
+ my $subdirs = $self->makemaker_args->{DIR} ||= [];
+ for my $subdir (@_) {
+ push @$subdirs, $subdir;
+ }
+}
+
+sub clean_files {
+ my $self = shift;
+ my $clean = $self->makemaker_args->{clean} ||= {};
+ %$clean = (
+ %$clean,
+ FILES => join ' ', grep { length $_ } ($clean->{FILES} || (), @_),
+ );
+}
+
+sub realclean_files {
+ my $self = shift;
+ my $realclean = $self->makemaker_args->{realclean} ||= {};
+ %$realclean = (
+ %$realclean,
+ FILES => join ' ', grep { length $_ } ($realclean->{FILES} || (), @_),
+ );
+}
+
+sub libs {
+ my $self = shift;
+ my $libs = ref $_[0] ? shift : [ shift ];
+ $self->makemaker_args( LIBS => $libs );
+}
+
+sub inc {
+ my $self = shift;
+ $self->makemaker_args( INC => shift );
+}
+
+sub _wanted_t {
+}
+
+sub tests_recursive {
+ my $self = shift;
+ my $dir = shift || 't';
+ unless ( -d $dir ) {
+ die "tests_recursive dir '$dir' does not exist";
+ }
+ my %tests = map { $_ => 1 } split / /, ($self->tests || '');
+ require File::Find;
+ File::Find::find(
+ sub { /\.t$/ and -f $_ and $tests{"$File::Find::dir/*.t"} = 1 },
+ $dir
+ );
+ $self->tests( join ' ', sort keys %tests );
+}
+
+sub write {
+ my $self = shift;
+ die "&Makefile->write() takes no arguments\n" if @_;
+
+ # Check the current Perl version
+ my $perl_version = $self->perl_version;
+ if ( $perl_version ) {
+ eval "use $perl_version; 1"
+ or die "ERROR: perl: Version $] is installed, "
+ . "but we need version >= $perl_version";
+ }
+
+ # Make sure we have a new enough MakeMaker
+ require ExtUtils::MakeMaker;
+
+ if ( $perl_version and $self->_cmp($perl_version, '5.006') >= 0 ) {
+ # MakeMaker can complain about module versions that include
+ # an underscore, even though its own version may contain one!
+ # Hence the funny regexp to get rid of it. See RT #35800
+ # for details.
+ my ($v) = $ExtUtils::MakeMaker::VERSION =~ /^(\d+\.\d+)/;
+ $self->build_requires( 'ExtUtils::MakeMaker' => $v );
+ $self->configure_requires( 'ExtUtils::MakeMaker' => $v );
+ } else {
+ # Allow legacy-compatibility with 5.005 by depending on the
+ # most recent EU:MM that supported 5.005.
+ $self->build_requires( 'ExtUtils::MakeMaker' => 6.36 );
+ $self->configure_requires( 'ExtUtils::MakeMaker' => 6.36 );
+ }
+
+ # Generate the MakeMaker params
+ my $args = $self->makemaker_args;
+ $args->{DISTNAME} = $self->name;
+ $args->{NAME} = $self->module_name || $self->name;
+ $args->{NAME} =~ s/-/::/g;
+ $args->{VERSION} = $self->version or die <<'EOT';
+ERROR: Can't determine distribution version. Please specify it
+explicitly via 'version' in Makefile.PL, or set a valid $VERSION
+in a module, and provide its file path via 'version_from' (or
+'all_from' if you prefer) in Makefile.PL.
+EOT
+
+ if ( $self->tests ) {
+ my @tests = split ' ', $self->tests;
+ my %seen;
+ $args->{test} = {
+ TESTS => (join ' ', grep {!$seen{$_}++} @tests),
+ };
+ } elsif ( $Module::Install::ExtraTests::use_extratests ) {
+ # Module::Install::ExtraTests doesn't set $self->tests and does its own tests via harness.
+ # So, just ignore our xt tests here.
+ } elsif ( -d 'xt' and ($Module::Install::AUTHOR or $ENV{RELEASE_TESTING}) ) {
+ $args->{test} = {
+ TESTS => join( ' ', map { "$_/*.t" } grep { -d $_ } qw{ t xt } ),
+ };
+ }
+ if ( $] >= 5.005 ) {
+ $args->{ABSTRACT} = $self->abstract;
+ $args->{AUTHOR} = join ', ', @{$self->author || []};
+ }
+ if ( $self->makemaker(6.10) ) {
+ $args->{NO_META} = 1;
+ #$args->{NO_MYMETA} = 1;
+ }
+ if ( $self->makemaker(6.17) and $self->sign ) {
+ $args->{SIGN} = 1;
+ }
+ unless ( $self->is_admin ) {
+ delete $args->{SIGN};
+ }
+ if ( $self->makemaker(6.31) and $self->license ) {
+ $args->{LICENSE} = $self->license;
+ }
+
+ my $prereq = ($args->{PREREQ_PM} ||= {});
+ %$prereq = ( %$prereq,
+ map { @$_ } # flatten [module => version]
+ map { @$_ }
+ grep $_,
+ ($self->requires)
+ );
+
+ # Remove any reference to perl, PREREQ_PM doesn't support it
+ delete $args->{PREREQ_PM}->{perl};
+
+ # Merge both kinds of requires into BUILD_REQUIRES
+ my $build_prereq = ($args->{BUILD_REQUIRES} ||= {});
+ %$build_prereq = ( %$build_prereq,
+ map { @$_ } # flatten [module => version]
+ map { @$_ }
+ grep $_,
+ ($self->configure_requires, $self->build_requires)
+ );
+
+ # Remove any reference to perl, BUILD_REQUIRES doesn't support it
+ delete $args->{BUILD_REQUIRES}->{perl};
+
+ # Delete bundled dists from prereq_pm, add it to Makefile DIR
+ my $subdirs = ($args->{DIR} || []);
+ if ($self->bundles) {
+ my %processed;
+ foreach my $bundle (@{ $self->bundles }) {
+ my ($mod_name, $dist_dir) = @$bundle;
+ delete $prereq->{$mod_name};
+ $dist_dir = File::Basename::basename($dist_dir); # dir for building this module
+ if (not exists $processed{$dist_dir}) {
+ if (-d $dist_dir) {
+ # List as sub-directory to be processed by make
+ push @$subdirs, $dist_dir;
+ }
+ # Else do nothing: the module is already present on the system
+ $processed{$dist_dir} = undef;
+ }
+ }
+ }
+
+ unless ( $self->makemaker('6.55_03') ) {
+ %$prereq = (%$prereq,%$build_prereq);
+ delete $args->{BUILD_REQUIRES};
+ }
+
+ if ( my $perl_version = $self->perl_version ) {
+ eval "use $perl_version; 1"
+ or die "ERROR: perl: Version $] is installed, "
+ . "but we need version >= $perl_version";
+
+ if ( $self->makemaker(6.48) ) {
+ $args->{MIN_PERL_VERSION} = $perl_version;
+ }
+ }
+
+ if ($self->installdirs) {
+ warn qq{old INSTALLDIRS (probably set by makemaker_args) is overriden by installdirs\n} if $args->{INSTALLDIRS};
+ $args->{INSTALLDIRS} = $self->installdirs;
+ }
+
+ my %args = map {
+ ( $_ => $args->{$_} ) } grep {defined($args->{$_} )
+ } keys %$args;
+
+ my $user_preop = delete $args{dist}->{PREOP};
+ if ( my $preop = $self->admin->preop($user_preop) ) {
+ foreach my $key ( keys %$preop ) {
+ $args{dist}->{$key} = $preop->{$key};
+ }
+ }
+
+ my $mm = ExtUtils::MakeMaker::WriteMakefile(%args);
+ $self->fix_up_makefile($mm->{FIRST_MAKEFILE} || 'Makefile');
+}
+
+sub fix_up_makefile {
+ my $self = shift;
+ my $makefile_name = shift;
+ my $top_class = ref($self->_top) || '';
+ my $top_version = $self->_top->VERSION || '';
+
+ my $preamble = $self->preamble
+ ? "# Preamble by $top_class $top_version\n"
+ . $self->preamble
+ : '';
+ my $postamble = "# Postamble by $top_class $top_version\n"
+ . ($self->postamble || '');
+
+ local *MAKEFILE;
+ open MAKEFILE, "+< $makefile_name" or die "fix_up_makefile: Couldn't open $makefile_name: $!";
+ eval { flock MAKEFILE, LOCK_EX };
+ my $makefile = do { local $/; <MAKEFILE> };
+
+ $makefile =~ s/\b(test_harness\(\$\(TEST_VERBOSE\), )/$1'inc', /;
+ $makefile =~ s/( -I\$\(INST_ARCHLIB\))/ -Iinc$1/g;
+ $makefile =~ s/( "-I\$\(INST_LIB\)")/ "-Iinc"$1/g;
+ $makefile =~ s/^(FULLPERL = .*)/$1 "-Iinc"/m;
+ $makefile =~ s/^(PERL = .*)/$1 "-Iinc"/m;
+
+ # Module::Install will never be used to build the Core Perl
+ # Sometimes PERL_LIB and PERL_ARCHLIB get written anyway, which breaks
+ # PREFIX/PERL5LIB, and thus, install_share. Blank them if they exist
+ $makefile =~ s/^PERL_LIB = .+/PERL_LIB =/m;
+ #$makefile =~ s/^PERL_ARCHLIB = .+/PERL_ARCHLIB =/m;
+
+ # Perl 5.005 mentions PERL_LIB explicitly, so we have to remove that as well.
+ $makefile =~ s/(\"?)-I\$\(PERL_LIB\)\1//g;
+
+ # XXX - This is currently unused; not sure if it breaks other MM-users
+ # $makefile =~ s/^pm_to_blib\s+:\s+/pm_to_blib :: /mg;
+
+ seek MAKEFILE, 0, SEEK_SET;
+ truncate MAKEFILE, 0;
+ print MAKEFILE "$preamble$makefile$postamble" or die $!;
+ close MAKEFILE or die $!;
+
+ 1;
+}
+
+sub preamble {
+ my ($self, $text) = @_;
+ $self->{preamble} = $text . $self->{preamble} if defined $text;
+ $self->{preamble};
+}
+
+sub postamble {
+ my ($self, $text) = @_;
+ $self->{postamble} ||= $self->admin->postamble;
+ $self->{postamble} .= $text if defined $text;
+ $self->{postamble}
+}
+
+1;
+
+__END__
+
+#line 540
--- /dev/null
+#line 1
+package Module::Install::Metadata;
+
+use strict 'vars';
+use Module::Install::Base ();
+
+use vars qw{$VERSION @ISA $ISCORE};
+BEGIN {
+ $VERSION = '1.04';
+ @ISA = 'Module::Install::Base';
+ $ISCORE = 1;
+}
+
+my @boolean_keys = qw{
+ sign
+};
+
+my @scalar_keys = qw{
+ name
+ module_name
+ abstract
+ version
+ distribution_type
+ tests
+ installdirs
+};
+
+my @tuple_keys = qw{
+ configure_requires
+ build_requires
+ requires
+ recommends
+ bundles
+ resources
+};
+
+my @resource_keys = qw{
+ homepage
+ bugtracker
+ repository
+};
+
+my @array_keys = qw{
+ keywords
+ author
+};
+
+*authors = \&author;
+
+sub Meta { shift }
+sub Meta_BooleanKeys { @boolean_keys }
+sub Meta_ScalarKeys { @scalar_keys }
+sub Meta_TupleKeys { @tuple_keys }
+sub Meta_ResourceKeys { @resource_keys }
+sub Meta_ArrayKeys { @array_keys }
+
+foreach my $key ( @boolean_keys ) {
+ *$key = sub {
+ my $self = shift;
+ if ( defined wantarray and not @_ ) {
+ return $self->{values}->{$key};
+ }
+ $self->{values}->{$key} = ( @_ ? $_[0] : 1 );
+ return $self;
+ };
+}
+
+foreach my $key ( @scalar_keys ) {
+ *$key = sub {
+ my $self = shift;
+ return $self->{values}->{$key} if defined wantarray and !@_;
+ $self->{values}->{$key} = shift;
+ return $self;
+ };
+}
+
+foreach my $key ( @array_keys ) {
+ *$key = sub {
+ my $self = shift;
+ return $self->{values}->{$key} if defined wantarray and !@_;
+ $self->{values}->{$key} ||= [];
+ push @{$self->{values}->{$key}}, @_;
+ return $self;
+ };
+}
+
+foreach my $key ( @resource_keys ) {
+ *$key = sub {
+ my $self = shift;
+ unless ( @_ ) {
+ return () unless $self->{values}->{resources};
+ return map { $_->[1] }
+ grep { $_->[0] eq $key }
+ @{ $self->{values}->{resources} };
+ }
+ return $self->{values}->{resources}->{$key} unless @_;
+ my $uri = shift or die(
+ "Did not provide a value to $key()"
+ );
+ $self->resources( $key => $uri );
+ return 1;
+ };
+}
+
+foreach my $key ( grep { $_ ne "resources" } @tuple_keys) {
+ *$key = sub {
+ my $self = shift;
+ return $self->{values}->{$key} unless @_;
+ my @added;
+ while ( @_ ) {
+ my $module = shift or last;
+ my $version = shift || 0;
+ push @added, [ $module, $version ];
+ }
+ push @{ $self->{values}->{$key} }, @added;
+ return map {@$_} @added;
+ };
+}
+
+# Resource handling
+my %lc_resource = map { $_ => 1 } qw{
+ homepage
+ license
+ bugtracker
+ repository
+};
+
+sub resources {
+ my $self = shift;
+ while ( @_ ) {
+ my $name = shift or last;
+ my $value = shift or next;
+ if ( $name eq lc $name and ! $lc_resource{$name} ) {
+ die("Unsupported reserved lowercase resource '$name'");
+ }
+ $self->{values}->{resources} ||= [];
+ push @{ $self->{values}->{resources} }, [ $name, $value ];
+ }
+ $self->{values}->{resources};
+}
+
+# Aliases for build_requires that will have alternative
+# meanings in some future version of META.yml.
+sub test_requires { shift->build_requires(@_) }
+sub install_requires { shift->build_requires(@_) }
+
+# Aliases for installdirs options
+sub install_as_core { $_[0]->installdirs('perl') }
+sub install_as_cpan { $_[0]->installdirs('site') }
+sub install_as_site { $_[0]->installdirs('site') }
+sub install_as_vendor { $_[0]->installdirs('vendor') }
+
+sub dynamic_config {
+ my $self = shift;
+ my $value = @_ ? shift : 1;
+ if ( $self->{values}->{dynamic_config} ) {
+ # Once dynamic we never change to static, for safety
+ return 0;
+ }
+ $self->{values}->{dynamic_config} = $value ? 1 : 0;
+ return 1;
+}
+
+# Convenience command
+sub static_config {
+ shift->dynamic_config(0);
+}
+
+sub perl_version {
+ my $self = shift;
+ return $self->{values}->{perl_version} unless @_;
+ my $version = shift or die(
+ "Did not provide a value to perl_version()"
+ );
+
+ # Normalize the version
+ $version = $self->_perl_version($version);
+
+ # We don't support the really old versions
+ unless ( $version >= 5.005 ) {
+ die "Module::Install only supports 5.005 or newer (use ExtUtils::MakeMaker)\n";
+ }
+
+ $self->{values}->{perl_version} = $version;
+}
+
+sub all_from {
+ my ( $self, $file ) = @_;
+
+ unless ( defined($file) ) {
+ my $name = $self->name or die(
+ "all_from called with no args without setting name() first"
+ );
+ $file = join('/', 'lib', split(/-/, $name)) . '.pm';
+ $file =~ s{.*/}{} unless -e $file;
+ unless ( -e $file ) {
+ die("all_from cannot find $file from $name");
+ }
+ }
+ unless ( -f $file ) {
+ die("The path '$file' does not exist, or is not a file");
+ }
+
+ $self->{values}{all_from} = $file;
+
+ # Some methods pull from POD instead of code.
+ # If there is a matching .pod, use that instead
+ my $pod = $file;
+ $pod =~ s/\.pm$/.pod/i;
+ $pod = $file unless -e $pod;
+
+ # Pull the different values
+ $self->name_from($file) unless $self->name;
+ $self->version_from($file) unless $self->version;
+ $self->perl_version_from($file) unless $self->perl_version;
+ $self->author_from($pod) unless @{$self->author || []};
+ $self->license_from($pod) unless $self->license;
+ $self->abstract_from($pod) unless $self->abstract;
+
+ return 1;
+}
+
+sub provides {
+ my $self = shift;
+ my $provides = ( $self->{values}->{provides} ||= {} );
+ %$provides = (%$provides, @_) if @_;
+ return $provides;
+}
+
+sub auto_provides {
+ my $self = shift;
+ return $self unless $self->is_admin;
+ unless (-e 'MANIFEST') {
+ warn "Cannot deduce auto_provides without a MANIFEST, skipping\n";
+ return $self;
+ }
+ # Avoid spurious warnings as we are not checking manifest here.
+ local $SIG{__WARN__} = sub {1};
+ require ExtUtils::Manifest;
+ local *ExtUtils::Manifest::manicheck = sub { return };
+
+ require Module::Build;
+ my $build = Module::Build->new(
+ dist_name => $self->name,
+ dist_version => $self->version,
+ license => $self->license,
+ );
+ $self->provides( %{ $build->find_dist_packages || {} } );
+}
+
+sub feature {
+ my $self = shift;
+ my $name = shift;
+ my $features = ( $self->{values}->{features} ||= [] );
+ my $mods;
+
+ if ( @_ == 1 and ref( $_[0] ) ) {
+ # The user used ->feature like ->features by passing in the second
+ # argument as a reference. Accomodate for that.
+ $mods = $_[0];
+ } else {
+ $mods = \@_;
+ }
+
+ my $count = 0;
+ push @$features, (
+ $name => [
+ map {
+ ref($_) ? ( ref($_) eq 'HASH' ) ? %$_ : @$_ : $_
+ } @$mods
+ ]
+ );
+
+ return @$features;
+}
+
+sub features {
+ my $self = shift;
+ while ( my ( $name, $mods ) = splice( @_, 0, 2 ) ) {
+ $self->feature( $name, @$mods );
+ }
+ return $self->{values}->{features}
+ ? @{ $self->{values}->{features} }
+ : ();
+}
+
+sub no_index {
+ my $self = shift;
+ my $type = shift;
+ push @{ $self->{values}->{no_index}->{$type} }, @_ if $type;
+ return $self->{values}->{no_index};
+}
+
+sub read {
+ my $self = shift;
+ $self->include_deps( 'YAML::Tiny', 0 );
+
+ require YAML::Tiny;
+ my $data = YAML::Tiny::LoadFile('META.yml');
+
+ # Call methods explicitly in case user has already set some values.
+ while ( my ( $key, $value ) = each %$data ) {
+ next unless $self->can($key);
+ if ( ref $value eq 'HASH' ) {
+ while ( my ( $module, $version ) = each %$value ) {
+ $self->can($key)->($self, $module => $version );
+ }
+ } else {
+ $self->can($key)->($self, $value);
+ }
+ }
+ return $self;
+}
+
+sub write {
+ my $self = shift;
+ return $self unless $self->is_admin;
+ $self->admin->write_meta;
+ return $self;
+}
+
+sub version_from {
+ require ExtUtils::MM_Unix;
+ my ( $self, $file ) = @_;
+ $self->version( ExtUtils::MM_Unix->parse_version($file) );
+
+ # for version integrity check
+ $self->makemaker_args( VERSION_FROM => $file );
+}
+
+sub abstract_from {
+ require ExtUtils::MM_Unix;
+ my ( $self, $file ) = @_;
+ $self->abstract(
+ bless(
+ { DISTNAME => $self->name },
+ 'ExtUtils::MM_Unix'
+ )->parse_abstract($file)
+ );
+}
+
+# Add both distribution and module name
+sub name_from {
+ my ($self, $file) = @_;
+ if (
+ Module::Install::_read($file) =~ m/
+ ^ \s*
+ package \s*
+ ([\w:]+)
+ \s* ;
+ /ixms
+ ) {
+ my ($name, $module_name) = ($1, $1);
+ $name =~ s{::}{-}g;
+ $self->name($name);
+ unless ( $self->module_name ) {
+ $self->module_name($module_name);
+ }
+ } else {
+ die("Cannot determine name from $file\n");
+ }
+}
+
+sub _extract_perl_version {
+ if (
+ $_[0] =~ m/
+ ^\s*
+ (?:use|require) \s*
+ v?
+ ([\d_\.]+)
+ \s* ;
+ /ixms
+ ) {
+ my $perl_version = $1;
+ $perl_version =~ s{_}{}g;
+ return $perl_version;
+ } else {
+ return;
+ }
+}
+
+sub perl_version_from {
+ my $self = shift;
+ my $perl_version=_extract_perl_version(Module::Install::_read($_[0]));
+ if ($perl_version) {
+ $self->perl_version($perl_version);
+ } else {
+ warn "Cannot determine perl version info from $_[0]\n";
+ return;
+ }
+}
+
+sub author_from {
+ my $self = shift;
+ my $content = Module::Install::_read($_[0]);
+ if ($content =~ m/
+ =head \d \s+ (?:authors?)\b \s*
+ ([^\n]*)
+ |
+ =head \d \s+ (?:licen[cs]e|licensing|copyright|legal)\b \s*
+ .*? copyright .*? \d\d\d[\d.]+ \s* (?:\bby\b)? \s*
+ ([^\n]*)
+ /ixms) {
+ my $author = $1 || $2;
+
+ # XXX: ugly but should work anyway...
+ if (eval "require Pod::Escapes; 1") {
+ # Pod::Escapes has a mapping table.
+ # It's in core of perl >= 5.9.3, and should be installed
+ # as one of the Pod::Simple's prereqs, which is a prereq
+ # of Pod::Text 3.x (see also below).
+ $author =~ s{ E<( (\d+) | ([A-Za-z]+) )> }
+ {
+ defined $2
+ ? chr($2)
+ : defined $Pod::Escapes::Name2character_number{$1}
+ ? chr($Pod::Escapes::Name2character_number{$1})
+ : do {
+ warn "Unknown escape: E<$1>";
+ "E<$1>";
+ };
+ }gex;
+ }
+ elsif (eval "require Pod::Text; 1" && $Pod::Text::VERSION < 3) {
+ # Pod::Text < 3.0 has yet another mapping table,
+ # though the table name of 2.x and 1.x are different.
+ # (1.x is in core of Perl < 5.6, 2.x is in core of
+ # Perl < 5.9.3)
+ my $mapping = ($Pod::Text::VERSION < 2)
+ ? \%Pod::Text::HTML_Escapes
+ : \%Pod::Text::ESCAPES;
+ $author =~ s{ E<( (\d+) | ([A-Za-z]+) )> }
+ {
+ defined $2
+ ? chr($2)
+ : defined $mapping->{$1}
+ ? $mapping->{$1}
+ : do {
+ warn "Unknown escape: E<$1>";
+ "E<$1>";
+ };
+ }gex;
+ }
+ else {
+ $author =~ s{E<lt>}{<}g;
+ $author =~ s{E<gt>}{>}g;
+ }
+ $self->author($author);
+ } else {
+ warn "Cannot determine author info from $_[0]\n";
+ }
+}
+
+#Stolen from M::B
+my %license_urls = (
+ perl => 'http://dev.perl.org/licenses/',
+ apache => 'http://apache.org/licenses/LICENSE-2.0',
+ apache_1_1 => 'http://apache.org/licenses/LICENSE-1.1',
+ artistic => 'http://opensource.org/licenses/artistic-license.php',
+ artistic_2 => 'http://opensource.org/licenses/artistic-license-2.0.php',
+ lgpl => 'http://opensource.org/licenses/lgpl-license.php',
+ lgpl2 => 'http://opensource.org/licenses/lgpl-2.1.php',
+ lgpl3 => 'http://opensource.org/licenses/lgpl-3.0.html',
+ bsd => 'http://opensource.org/licenses/bsd-license.php',
+ gpl => 'http://opensource.org/licenses/gpl-license.php',
+ gpl2 => 'http://opensource.org/licenses/gpl-2.0.php',
+ gpl3 => 'http://opensource.org/licenses/gpl-3.0.html',
+ mit => 'http://opensource.org/licenses/mit-license.php',
+ mozilla => 'http://opensource.org/licenses/mozilla1.1.php',
+ open_source => undef,
+ unrestricted => undef,
+ restrictive => undef,
+ unknown => undef,
+);
+
+sub license {
+ my $self = shift;
+ return $self->{values}->{license} unless @_;
+ my $license = shift or die(
+ 'Did not provide a value to license()'
+ );
+ $license = __extract_license($license) || lc $license;
+ $self->{values}->{license} = $license;
+
+ # Automatically fill in license URLs
+ if ( $license_urls{$license} ) {
+ $self->resources( license => $license_urls{$license} );
+ }
+
+ return 1;
+}
+
+sub _extract_license {
+ my $pod = shift;
+ my $matched;
+ return __extract_license(
+ ($matched) = $pod =~ m/
+ (=head \d \s+ L(?i:ICEN[CS]E|ICENSING)\b.*?)
+ (=head \d.*|=cut.*|)\z
+ /xms
+ ) || __extract_license(
+ ($matched) = $pod =~ m/
+ (=head \d \s+ (?:C(?i:OPYRIGHTS?)|L(?i:EGAL))\b.*?)
+ (=head \d.*|=cut.*|)\z
+ /xms
+ );
+}
+
+sub __extract_license {
+ my $license_text = shift or return;
+ my @phrases = (
+ '(?:under )?the same (?:terms|license) as (?:perl|the perl (?:\d )?programming language)' => 'perl', 1,
+ '(?:under )?the terms of (?:perl|the perl programming language) itself' => 'perl', 1,
+ 'Artistic and GPL' => 'perl', 1,
+ 'GNU general public license' => 'gpl', 1,
+ 'GNU public license' => 'gpl', 1,
+ 'GNU lesser general public license' => 'lgpl', 1,
+ 'GNU lesser public license' => 'lgpl', 1,
+ 'GNU library general public license' => 'lgpl', 1,
+ 'GNU library public license' => 'lgpl', 1,
+ 'GNU Free Documentation license' => 'unrestricted', 1,
+ 'GNU Affero General Public License' => 'open_source', 1,
+ '(?:Free)?BSD license' => 'bsd', 1,
+ 'Artistic license 2\.0' => 'artistic_2', 1,
+ 'Artistic license' => 'artistic', 1,
+ 'Apache (?:Software )?license' => 'apache', 1,
+ 'GPL' => 'gpl', 1,
+ 'LGPL' => 'lgpl', 1,
+ 'BSD' => 'bsd', 1,
+ 'Artistic' => 'artistic', 1,
+ 'MIT' => 'mit', 1,
+ 'Mozilla Public License' => 'mozilla', 1,
+ 'Q Public License' => 'open_source', 1,
+ 'OpenSSL License' => 'unrestricted', 1,
+ 'SSLeay License' => 'unrestricted', 1,
+ 'zlib License' => 'open_source', 1,
+ 'proprietary' => 'proprietary', 0,
+ );
+ while ( my ($pattern, $license, $osi) = splice(@phrases, 0, 3) ) {
+ $pattern =~ s#\s+#\\s+#gs;
+ if ( $license_text =~ /\b$pattern\b/i ) {
+ return $license;
+ }
+ }
+ return '';
+}
+
+sub license_from {
+ my $self = shift;
+ if (my $license=_extract_license(Module::Install::_read($_[0]))) {
+ $self->license($license);
+ } else {
+ warn "Cannot determine license info from $_[0]\n";
+ return 'unknown';
+ }
+}
+
+sub _extract_bugtracker {
+ my @links = $_[0] =~ m#L<(
+ https?\Q://rt.cpan.org/\E[^>]+|
+ https?\Q://github.com/\E[\w_]+/[\w_]+/issues|
+ https?\Q://code.google.com/p/\E[\w_\-]+/issues/list
+ )>#gx;
+ my %links;
+ @links{@links}=();
+ @links=keys %links;
+ return @links;
+}
+
+sub bugtracker_from {
+ my $self = shift;
+ my $content = Module::Install::_read($_[0]);
+ my @links = _extract_bugtracker($content);
+ unless ( @links ) {
+ warn "Cannot determine bugtracker info from $_[0]\n";
+ return 0;
+ }
+ if ( @links > 1 ) {
+ warn "Found more than one bugtracker link in $_[0]\n";
+ return 0;
+ }
+
+ # Set the bugtracker
+ bugtracker( $links[0] );
+ return 1;
+}
+
+sub requires_from {
+ my $self = shift;
+ my $content = Module::Install::_readperl($_[0]);
+ my @requires = $content =~ m/^use\s+([^\W\d]\w*(?:::\w+)*)\s+(v?[\d\.]+)/mg;
+ while ( @requires ) {
+ my $module = shift @requires;
+ my $version = shift @requires;
+ $self->requires( $module => $version );
+ }
+}
+
+sub test_requires_from {
+ my $self = shift;
+ my $content = Module::Install::_readperl($_[0]);
+ my @requires = $content =~ m/^use\s+([^\W\d]\w*(?:::\w+)*)\s+([\d\.]+)/mg;
+ while ( @requires ) {
+ my $module = shift @requires;
+ my $version = shift @requires;
+ $self->test_requires( $module => $version );
+ }
+}
+
+# Convert triple-part versions (eg, 5.6.1 or 5.8.9) to
+# numbers (eg, 5.006001 or 5.008009).
+# Also, convert double-part versions (eg, 5.8)
+sub _perl_version {
+ my $v = $_[-1];
+ $v =~ s/^([1-9])\.([1-9]\d?\d?)$/sprintf("%d.%03d",$1,$2)/e;
+ $v =~ s/^([1-9])\.([1-9]\d?\d?)\.(0|[1-9]\d?\d?)$/sprintf("%d.%03d%03d",$1,$2,$3 || 0)/e;
+ $v =~ s/(\.\d\d\d)000$/$1/;
+ $v =~ s/_.+$//;
+ if ( ref($v) ) {
+ # Numify
+ $v = $v + 0;
+ }
+ return $v;
+}
+
+sub add_metadata {
+ my $self = shift;
+ my %hash = @_;
+ for my $key (keys %hash) {
+ warn "add_metadata: $key is not prefixed with 'x_'.\n" .
+ "Use appopriate function to add non-private metadata.\n" unless $key =~ /^x_/;
+ $self->{values}->{$key} = $hash{$key};
+ }
+}
+
+
+######################################################################
+# MYMETA Support
+
+sub WriteMyMeta {
+ die "WriteMyMeta has been deprecated";
+}
+
+sub write_mymeta_yaml {
+ my $self = shift;
+
+ # We need YAML::Tiny to write the MYMETA.yml file
+ unless ( eval { require YAML::Tiny; 1; } ) {
+ return 1;
+ }
+
+ # Generate the data
+ my $meta = $self->_write_mymeta_data or return 1;
+
+ # Save as the MYMETA.yml file
+ print "Writing MYMETA.yml\n";
+ YAML::Tiny::DumpFile('MYMETA.yml', $meta);
+}
+
+sub write_mymeta_json {
+ my $self = shift;
+
+ # We need JSON to write the MYMETA.json file
+ unless ( eval { require JSON; 1; } ) {
+ return 1;
+ }
+
+ # Generate the data
+ my $meta = $self->_write_mymeta_data or return 1;
+
+ # Save as the MYMETA.yml file
+ print "Writing MYMETA.json\n";
+ Module::Install::_write(
+ 'MYMETA.json',
+ JSON->new->pretty(1)->canonical->encode($meta),
+ );
+}
+
+sub _write_mymeta_data {
+ my $self = shift;
+
+ # If there's no existing META.yml there is nothing we can do
+ return undef unless -f 'META.yml';
+
+ # We need Parse::CPAN::Meta to load the file
+ unless ( eval { require Parse::CPAN::Meta; 1; } ) {
+ return undef;
+ }
+
+ # Merge the perl version into the dependencies
+ my $val = $self->Meta->{values};
+ my $perl = delete $val->{perl_version};
+ if ( $perl ) {
+ $val->{requires} ||= [];
+ my $requires = $val->{requires};
+
+ # Canonize to three-dot version after Perl 5.6
+ if ( $perl >= 5.006 ) {
+ $perl =~ s{^(\d+)\.(\d\d\d)(\d*)}{join('.', $1, int($2||0), int($3||0))}e
+ }
+ unshift @$requires, [ perl => $perl ];
+ }
+
+ # Load the advisory META.yml file
+ my @yaml = Parse::CPAN::Meta::LoadFile('META.yml');
+ my $meta = $yaml[0];
+
+ # Overwrite the non-configure dependency hashs
+ delete $meta->{requires};
+ delete $meta->{build_requires};
+ delete $meta->{recommends};
+ if ( exists $val->{requires} ) {
+ $meta->{requires} = { map { @$_ } @{ $val->{requires} } };
+ }
+ if ( exists $val->{build_requires} ) {
+ $meta->{build_requires} = { map { @$_ } @{ $val->{build_requires} } };
+ }
+
+ return $meta;
+}
+
+1;
--- /dev/null
+#line 1
+package Module::Install::Win32;
+
+use strict;
+use Module::Install::Base ();
+
+use vars qw{$VERSION @ISA $ISCORE};
+BEGIN {
+ $VERSION = '1.04';
+ @ISA = 'Module::Install::Base';
+ $ISCORE = 1;
+}
+
+# determine if the user needs nmake, and download it if needed
+sub check_nmake {
+ my $self = shift;
+ $self->load('can_run');
+ $self->load('get_file');
+
+ require Config;
+ return unless (
+ $^O eq 'MSWin32' and
+ $Config::Config{make} and
+ $Config::Config{make} =~ /^nmake\b/i and
+ ! $self->can_run('nmake')
+ );
+
+ print "The required 'nmake' executable not found, fetching it...\n";
+
+ require File::Basename;
+ my $rv = $self->get_file(
+ url => 'http://download.microsoft.com/download/vc15/Patch/1.52/W95/EN-US/Nmake15.exe',
+ ftp_url => 'ftp://ftp.microsoft.com/Softlib/MSLFILES/Nmake15.exe',
+ local_dir => File::Basename::dirname($^X),
+ size => 51928,
+ run => 'Nmake15.exe /o > nul',
+ check_for => 'Nmake.exe',
+ remove => 1,
+ );
+
+ die <<'END_MESSAGE' unless $rv;
+
+-------------------------------------------------------------------------------
+
+Since you are using Microsoft Windows, you will need the 'nmake' utility
+before installation. It's available at:
+
+ http://download.microsoft.com/download/vc15/Patch/1.52/W95/EN-US/Nmake15.exe
+ or
+ ftp://ftp.microsoft.com/Softlib/MSLFILES/Nmake15.exe
+
+Please download the file manually, save it to a directory in %PATH% (e.g.
+C:\WINDOWS\COMMAND\), then launch the MS-DOS command line shell, "cd" to
+that directory, and run "Nmake15.exe" from there; that will create the
+'nmake.exe' file needed by this module.
+
+You may then resume the installation process described in README.
+
+-------------------------------------------------------------------------------
+END_MESSAGE
+
+}
+
+1;
--- /dev/null
+#line 1
+package Module::Install::WriteAll;
+
+use strict;
+use Module::Install::Base ();
+
+use vars qw{$VERSION @ISA $ISCORE};
+BEGIN {
+ $VERSION = '1.04';
+ @ISA = qw{Module::Install::Base};
+ $ISCORE = 1;
+}
+
+sub WriteAll {
+ my $self = shift;
+ my %args = (
+ meta => 1,
+ sign => 0,
+ inline => 0,
+ check_nmake => 1,
+ @_,
+ );
+
+ $self->sign(1) if $args{sign};
+ $self->admin->WriteAll(%args) if $self->is_admin;
+
+ $self->check_nmake if $args{check_nmake};
+ unless ( $self->makemaker_args->{PL_FILES} ) {
+ # XXX: This still may be a bit over-defensive...
+ unless ($self->makemaker(6.25)) {
+ $self->makemaker_args( PL_FILES => {} ) if -f 'Build.PL';
+ }
+ }
+
+ # Until ExtUtils::MakeMaker support MYMETA.yml, make sure
+ # we clean it up properly ourself.
+ $self->realclean_files('MYMETA.yml');
+
+ if ( $args{inline} ) {
+ $self->Inline->write;
+ } else {
+ $self->Makefile->write;
+ }
+
+ # The Makefile write process adds a couple of dependencies,
+ # so write the META.yml files after the Makefile.
+ if ( $args{meta} ) {
+ $self->Meta->write;
+ }
+
+ # Experimental support for MYMETA
+ if ( $ENV{X_MYMETA} ) {
+ if ( $ENV{X_MYMETA} eq 'JSON' ) {
+ $self->Meta->write_mymeta_json;
+ } else {
+ $self->Meta->write_mymeta_yaml;
+ }
+ }
+
+ return 1;
+}
+
+1;
--- /dev/null
+package Statistics::R;
+
+
+use 5.006;
+use strict;
+use warnings;
+use Regexp::Common;
+use File::Spec::Functions;
+use Statistics::R::Legacy;
+use IPC::Run qw( harness start pump finish );
+use Text::Balanced qw ( extract_delimited extract_multiple );
+
+if ( $^O =~ m/^(?:.*?win32|dos)$/i ) {
+ require Statistics::R::Win32;
+}
+
+our $VERSION = '0.24';
+
+our ($SHARED_BRIDGE, $SHARED_STDIN, $SHARED_STDOUT, $SHARED_STDERR);
+
+my $prog = 'R'; # executable we are after... R
+my $eos = 'Statistics::R::EOS'; # string to signal the R output stream end
+my $eos_re = qr/$eos\n$/; # regexp to match end of R stream
+
+=head1 NAME
+
+Statistics::R - Perl interface with the R statistical program
+
+=head1 DESCRIPTION
+
+I<Statistics::R> is a module to controls the R interpreter (R project for statistical
+computing: L<http://www.r-project.org/>). It lets you start R, pass commands to
+it and retrieve the output. A shared mode allow to have several instances of
+I<Statistics::R> talk to the same R process.
+
+The current I<Statistics::R> implementation uses pipes (for stdin, stdout and
+and stderr) to communicate with R. This implementation should be more efficient
+and reliable than that in previous version, which relied on reading and writing
+files. As before, this module works on GNU/Linux, MS Windows and probably many
+more systems.
+
+=head1 SYNOPSIS
+
+ use Statistics::R;
+
+ # Create a communication bridge with R and start R
+ my $R = Statistics::R->new();
+
+ # Run simple R commands
+ my $output_file = "file.ps";
+ $R->run(qq`postscript("$output_file" , horizontal=FALSE , width=500 , height=500 , pointsize=1)`);
+ $R->run(q`plot(c(1, 5, 10), type = "l")`);
+ $R->run(q`dev.off()`);
+
+ # Pass and retrieve data (scalars or arrays)
+ my $input_value = 1;
+ $R->set('x', $input_value);
+ $R->run(q`y <- x^2`);
+ my $output_value = $R->get('y');
+ print "y = $output_value\n";
+
+ $R->stop();
+
+=head1 METHODS
+
+=over 4
+
+=item new()
+
+Build a I<Statistics::R> bridge object between Perl and R. Available options are:
+
+
+=over 4
+
+=item r_bin
+
+Specify the full path to R if it is not automatically found. See L<INSTALLATION>.
+
+=item shared
+
+Start a shared bridge. When using a shared bridge, several instances of
+Statistics::R can communicate with the same unique R instance. Example:
+
+ use Statistics::R;
+
+ my $R1 = Statistics::R->new( shared => 1);
+ my $R2 = Statistics::R->new( shared => 1);
+
+ $R1->set( 'x', 'pear' );
+ my $x = $R2->get( 'x' );
+ print "x = $x\n";
+
+Do not call the I<stop()> method is you still have processes that need to interact
+with R.
+
+=back
+
+
+=item run()
+
+First, start() R if it is not yet running. Then, execute R commands passed as a
+string and return the output as a string. If your command fails to run in R, an
+error message will be displayed.
+
+Example:
+
+ my $out = $R->run( q`print( 1 + 2 )` );
+
+If you intend on runnning many R commands, it may be convenient to pass an array
+of commands or put multiple commands in an here-doc:
+
+ # Array of R commands:
+ my $out1 = $R->run(
+ q`a <- 2`,
+ q`b <- 5`,
+ q`c <- a * b`,
+ q`print("ok")`
+ );
+
+ # Here-doc with multiple R commands:
+ my $cmds = <<EOF;
+ a <- 2
+ b <- 5
+ c <- a * b
+ print('ok')
+ EOF
+ my $out2 = $R->run($cmds);
+
+To run commands from a file, see the run_from_file() method.
+
+The output you get from run() is the combination of what R would display on the
+standard output and the standard error, but the order may differ. When loading
+modules, some may write numerous messages on standard error. You can disable
+this behavior using the following R command:
+
+ suppressPackageStartupMessages(library(library_to_load))
+
+
+=item run_from_file()
+
+Similar to run() but reads the R commands from the specified file. Internally,
+this method uses the R source() command to read the file.
+
+=item set()
+
+Set the value of an R variable (scalar or arrayref). Example:
+
+ $R->set( 'x', 'pear' );
+
+or
+
+ $R->set( 'y', [1, 2, 3] );
+
+
+=item get()
+
+Get the value of an R variable (scalar or arrayref). Example:
+
+ my $x = $R->get( 'x' ); # $y is an scalar
+
+or
+
+ my $y = $R->get( 'y' ); # $x is an arrayref
+
+=item start()
+
+Explicitly start R. Most times, you do not need to do that because the first
+execution of run() or set() will automatically call start().
+
+=item stop()
+
+Stop a running instance of R.
+
+=item restart()
+
+stop() and start() R.
+
+=item bin()
+
+Get or set the path to the R executable.
+
+=item is_shared()
+
+Was R started in shared mode?
+
+=item is_started()
+
+Is R running?
+
+=item pid()
+
+Return the pid of the running R process
+
+=back
+
+=head1 INSTALLATION
+
+Since I<Statistics::R> relies on R to work, you need to install R first. See this
+page for downloads, L<http://www.r-project.org/>. If R is in your PATH environment
+variable, then it should be available from a terminal and be detected
+automatically by I<Statistics::R>. This means that you don't have to do anything
+on Linux systems to get I<Statistics::R> working. On Windows systems, in addition
+to the folders described in PATH, the usual suspects will be checked for the
+presence of the R binary, e.g. C:\Program Files\R. If I<Statistics::R> does not
+find R installation, your last recourse is to specify its full path when calling
+new():
+
+ my $R = Statistics::R->new( r_bin => $fullpath );
+
+You also need to have the following CPAN Perl modules installed:
+
+=over 4
+
+=item Text::Balanced (>= 1.97)
+
+=item Regexp::Common
+
+=item IPC::Run
+
+=back
+
+=head1 SEE ALSO
+
+=over 4
+
+=item * L<Statistics::R::Win32>
+
+=item * L<Statistics::R::Legacy>
+
+=item * The R-project web site: L<http://www.r-project.org/>
+
+=item * Statistics:: modules for Perl: L<http://search.cpan.org/search?query=Statistics&mode=module>
+
+=back
+
+=head1 AUTHORS
+
+Florent Angly E<lt>florent.angly@gmail.comE<gt> (2011 rewrite)
+
+Graciliano M. P. E<lt>gm@virtuasites.com.brE<gt> (original code)
+
+=head1 MAINTAINER
+
+Brian Cassidy E<lt>bricas@cpan.orgE<gt>
+
+=head1 COPYRIGHT & LICENSE
+
+This program is free software; you can redistribute it and/or
+modify it under the same terms as Perl itself.
+
+=head1 BUGS
+
+All complex software has bugs lurking in it, and this program is no exception.
+If you find a bug, please report it on the CPAN Tracker of Statistics::R:
+L<http://rt.cpan.org/Dist/Display.html?Name=Statistics-R>
+
+Bug reports, suggestions and patches are welcome. The Statistics::R code is
+developed on Github (L<http://github.com/bricas/statistics-r>) and is under Git
+revision control. To get the latest revision, run:
+
+ git clone git@github.com:bricas/statistics-r.git
+
+=cut
+
+
+sub new {
+ # Create a new R communication object
+ my ($class, %args) = @_;
+ my $self = {};
+ bless $self, ref($class) || $class;
+ $self->initialize( %args );
+ return $self;
+}
+
+
+sub is_shared {
+ # Get (/ set) the whether or not Statistics::R is setup to run in shared mode
+ my ($self, $val) = @_;
+ if (defined $val) {
+ $self->{is_shared} = $val;
+ }
+ return $self->{is_shared};
+}
+
+
+{
+no warnings 'redefine';
+sub start {
+ my ($self, %args) = @_;
+ my $status = 1;
+ if (not $self->is_started) {
+
+ # If shared mode option of start() requested, rebuild the bridge in shared
+ # mode. Don't use this option though. It is only here to cater for the legacy
+ # method start_shared()
+ if ( exists($args{shared}) && ($args{shared} == 1) ) {
+ $self->is_shared( 1 );
+ $self->bridge( 1 );
+ }
+
+ # Now, start R
+ my $bridge = $self->bridge;
+ $status = $bridge->start or die "Error starting $prog: $?\n";
+ $self->bin( $bridge->{KIDS}->[0]->{PATH} );
+ }
+
+ return $status;
+}
+}
+
+
+sub stop {
+ my ($self) = @_;
+ my $status = 1;
+ if ($self->is_started) {
+ $status = $self->bridge->finish or die "Error stopping $prog: $?\n";
+ }
+ return $status;
+}
+
+
+sub restart {
+ my ($self) = @_;
+ return $self->stop && $self->start;
+}
+
+
+sub is_started {
+ # Query whether or not R is currently running
+ return shift->bridge->{STATE} eq IPC::Run::_started ? 1 : 0;
+}
+
+
+sub pid {
+ # Get (/ set) the PID of the running R process. It is accessible only after
+ # the bridge has start()ed
+ return shift->bridge->{KIDS}->[0]->{PID};
+}
+
+
+sub bin {
+ # Get / set the full path to the R binary program to use. Unless you have set
+ # the path yourself, it is accessible only after the bridge has start()ed
+ my ($self, $val) = @_;
+ if (defined $val) {
+ $self->{bin} = $val;
+ }
+ return $self->{bin};
+}
+
+
+sub run {
+ # Pass the input and get the output
+ my ($self, @cmds) = @_;
+
+ # Need to start R now if it is not already running
+ $self->start if not $self->is_started;
+
+
+ # Process each command
+ my $results = '';
+ for my $cmd (@cmds) {
+
+ # Wrap command for execution in R
+ $self->stdin( $self->wrap_cmd($cmd) );
+
+ # Pass input to R and get its output
+ my $bridge = $self->bridge;
+ while ( $self->stdout !~ m/$eos_re/gc && $bridge->pumpable ) {
+ $bridge->pump;
+ }
+
+ # Parse outputs, detect errors
+ my $out = $self->stdout;
+ $out =~ s/$eos_re//g;
+ chomp $out;
+ my $err = $self->stderr;
+ chomp $err;
+ if ($out =~ m/<simpleError.*?:(.*)>/sg) {
+ # Parse (multi-line) error message
+ my $err_msg = $1."\n".$err;
+ die "Problem running the R command:\n$cmd\n\nGot the error:\n$err_msg\n";
+ }
+
+ # Save results and reinitialize
+ $results .= "\n" if $results;
+ $results .= $err.$out;
+ $self->stdout('');
+ $self->stderr('');
+
+ }
+
+ $self->result($results);
+
+ return $results;
+}
+
+
+sub run_from_file {
+ my ($self, $file) = @_;
+ my $results = $self->run( qq`source('$file')` );
+ return $results;
+}
+
+
+sub set {
+ # Assign a variable or array of variables in R. Use undef if you want to
+ # assign NULL to an R variable
+ my ($self, $varname, $arr) = @_;
+
+ # Check variable type, convert everything into an arrayref
+ my $ref = ref $arr;
+ if ($ref eq '') {
+ # This is a scalar
+ $arr = [ $arr ];
+ } elsif ($ref eq 'ARRAY') {
+ # This is an array reference, nothing to do
+ } else {
+ die "Error: Import variable of type $ref is not supported\n";
+ }
+
+ # Quote strings and nullify undef variables
+ for (my $i = 0; $i < scalar @$arr; $i++) {
+ if (defined $$arr[$i]) {
+ if ( $$arr[$i] !~ /^$RE{num}{real}$/ ) {
+ $$arr[$i] = '"'.$$arr[$i].'"';
+ }
+ } else {
+ $$arr[$i] = 'NULL';
+ }
+ }
+
+ # Build a string and run it to import data
+ my $cmd = $varname.' <- c('.join(', ',@$arr).')';
+ $self->run($cmd);
+ return 1;
+}
+
+
+sub get {
+ # Get the value of an R variable
+ my ($self, $varname) = @_;
+ my $string = $self->run(qq`print($varname)`);
+
+ # Parse R output
+ my $value;
+ if ($string eq 'NULL') {
+ $value = undef;
+ } elsif ($string =~ m/^\s*\[\d+\]/) {
+ # Vector: its string look like:
+ # ' [1] 6.4 13.3 4.1 1.3 14.1 10.6 9.9 9.6 15.3
+ # [16] 5.2 10.9 14.4'
+ my @lines = split /\n/, $string;
+ for (my $i = 0; $i < scalar @lines; $i++) {
+ $lines[$i] =~ s/^\s*\[\d+\] //;
+ }
+ $value = join ' ', @lines;
+ } else {
+ my @lines = split /\n/, $string;
+ if (scalar @lines == 2) {
+ # String looks like: ' mean
+ # 10.41111 '
+ # Extract value from second line
+ $value = $lines[1];
+ $value =~ s/^\s*(\S+)\s*$/$1/;
+ } else {
+ #die "Error: Don't know how to handle this R output\n$string\n";
+ $value = $string;
+ }
+ }
+
+ # Clean
+ my @arr;
+ if (not defined $value) {
+ @arr = ( undef );
+ } else {
+ # Split string into an array, paying attention to strings containing spaces
+ @arr = extract_multiple( $value, [sub { extract_delimited($_[0],q{ '"}) },] );
+ for (my $i = 0; $i < scalar @arr; $i++) {
+ my $elem = $arr[$i];
+ if ($elem =~ m/^\s*$/) {
+ # Remove elements that are simply whitespaces
+ splice @arr, $i, 1;
+ $i--;
+ } else {
+ # Trim whitespaces
+ $arr[$i] =~ s/^\s*(.*?)\s*$/$1/;
+ # Remove double-quotes
+ $arr[$i] =~ s/^"(.*)"$/$1/;
+ }
+ }
+ }
+
+ # Return either a scalar of an arrayref
+ my $ret_val;
+ if (scalar @arr == 1) {
+ $ret_val = $arr[0];
+ } else {
+ $ret_val = \@arr;
+ }
+
+ return $ret_val;
+}
+
+
+#---------- INTERNAL METHODS --------------------------------------------------#
+
+
+sub initialize {
+ my ($self, %args) = @_;
+
+ # Path of R binary
+ my $bin;
+ if ( $args{ r_bin } || $args{ R_bin } ) {
+ $bin = $args{ r_bin } || $args{ R_bin };
+ } else {
+ $bin = $prog; # IPC::Run will find the full path for the program later
+ }
+ $self->bin( $bin );
+
+ # Using shared mode?
+ if ( exists($args{shared}) && ($args{shared} == 1) ) {
+ $self->is_shared( 1 );
+ } else {
+ $self->is_shared( 0 );
+ }
+
+ # Build the bridge
+ $self->bridge( 1 );
+
+ return 1;
+}
+
+
+sub bridge {
+ # Get or build the communication bridge and IOs with R
+ my ($self, $build) = @_;
+ if ($build) {
+ my $cmd = [ $self->bin, '--vanilla', '--slave' ];
+ if (not $self->is_shared) {
+ my ($stdin, $stdout, $stderr);
+ $self->{stdin} = \$stdin;
+ $self->{stdout} = \$stdout;
+ $self->{stderr} = \$stderr;
+ $self->{bridge} = harness $cmd, $self->{stdin}, $self->{stdout}, $self->{stderr};
+ } else {
+ $self->{stdin} = \$SHARED_STDIN ;
+ $self->{stdout} = \$SHARED_STDOUT;
+ $self->{stderr} = \$SHARED_STDERR;
+ if (not defined $SHARED_BRIDGE) {
+ # The first Statics::R instance builds the bridge
+ $SHARED_BRIDGE = harness $cmd, $self->{stdin}, $self->{stdout}, $self->{stderr};
+ }
+ $self->{bridge} = $SHARED_BRIDGE;
+ }
+ }
+ return $self->{bridge};
+}
+
+
+sub stdin {
+ # Get / set standard input string for R
+ my ($self, $val) = @_;
+ if (defined $val) {
+ ${$self->{stdin}} = $val;
+ }
+ return ${$self->{stdin}};
+}
+
+
+sub stdout {
+ # Get / set standard output string for R
+ my ($self, $val) = @_;
+ if (defined $val) {
+ ${$self->{stdout}} = $val;
+ }
+ return ${$self->{stdout}};
+}
+
+
+sub stderr {
+ # Get / set standard error string for R
+ my ($self, $val) = @_;
+ if (defined $val) {
+ ${$self->{stderr}} = $val;
+ }
+ return ${$self->{stderr}};
+}
+
+
+sub result {
+ # Get / set result of last R command
+ my ($self, $val) = @_;
+ if (defined $val) {
+ $self->{result} = $val;
+ }
+ return $self->{result};
+}
+
+
+sub wrap_cmd {
+ # Wrap a command to pass to R. Whether the command is successful or not, the
+ # end of stream string will appear on stdout and indicate that R has finished
+ # processing the data. Note that $cmd can be multiple R commands.
+ my ($self, $cmd) = @_;
+
+ # Escape double-quotes
+ $cmd =~ s/"/\\"/g;
+
+ # Evaluate command (and catch syntax and runtime errors)
+ $cmd = qq`tryCatch( eval(parse(text="$cmd")) , error = function(e){print(e)} ); write("$eos",stdout())\n`;
+
+ return $cmd;
+}
+
+
+1;
--- /dev/null
+package Statistics::R::Legacy;
+
+
+use strict;
+use warnings;
+
+use base qw( Statistics::R );
+
+use vars qw{@ISA @EXPORT};
+
+BEGIN {
+ @ISA = 'Exporter';
+ @EXPORT = qw{
+ startR
+ stopR
+ restartR
+ Rbin
+ start_sharedR
+ start_shared
+ read
+ receive
+ is_blocked
+ is_locked
+ receive
+ lock
+ unlock
+ send
+ error
+ clean_up
+ };
+}
+
+=head1 NAME
+
+Statistics::R::Legacy - Legacy methods for Statistics::R
+
+=head1 DESCRIPTION
+
+This module contains legacy methods for I<Statistics::R>. They are provided
+solely so that code that uses older versions of I<Statistics::R> does not crash
+with recent version. Do not use these methods in new code!
+
+Some of these legacy methods simply had their name changed, but some others were
+changed to do nothing and return only single value because it did not make sense
+to keep these methods as originally intended anymore.
+
+=head1 METHODS
+
+=over 4
+
+=item startR()
+
+This is the same thing as start().
+
+=item stopR()
+
+This is the same thing as stop().
+
+=item restartR()
+
+This is the same thing as restart().
+
+=item Rbin()
+
+This is the same thing as bin().
+
+=item start_sharedR() / start_shared()
+
+Use the shared option of new() instead.
+
+=item send / read() / receive()
+
+Use run() instead.
+
+=item lock()
+
+Does nothing anymore.
+
+=item unlock()
+
+Does nothing anymore.
+
+=item is_blocked() / is_locked()
+
+Return 0.
+
+=item
+
+Return the empty string.
+
+=item clean_up()
+
+Does nothing anymore.
+
+=back
+
+=head1 SEE ALSO
+
+=over 4
+
+=item * L<Statistics::R>
+
+=back
+
+=head1 AUTHORS
+
+Florent Angly E<lt>florent.angly@gmail.comE<gt> (2011 rewrite)
+
+Graciliano M. P. E<lt>gm@virtuasites.com.brE<gt> (original code)
+
+=head1 MAINTAINER
+
+Brian Cassidy E<lt>bricas@cpan.orgE<gt>
+
+=head1 COPYRIGHT & LICENSE
+
+This program is free software; you can redistribute it and/or
+modify it under the same terms as Perl itself.
+
+=head1 BUGS
+
+All complex software has bugs lurking in it, and this program is no exception.
+If you find a bug, please report it on the CPAN Tracker of Statistics::R:
+L<http://rt.cpan.org/Dist/Display.html?Name=Statistics-R>
+
+Bug reports, suggestions and patches are welcome. The Statistics::R code is
+developed on Github (L<http://github.com/bricas/statistics-r>) and is under Git
+revision control. To get the latest revision, run:
+
+ git clone git@github.com:bricas/statistics-r.git
+
+=cut
+
+
+{
+ # Prevent "Name XXX used only once" warnings in this block
+ no warnings 'once';
+ *startR = \&Statistics::R::start;
+ *stopR = \&Statistics::R::stop;
+ *restartR = \&Statistics::R::restart;
+ *Rbin = \&Statistics::R::bin;
+ *receive = \&Statistics::R::result;
+ *start_sharedR = \&start_shared;
+ *read = \&receive;
+ *is_blocked = \&is_locked;
+}
+
+
+sub start_shared {
+ my $self = shift;
+ $self->start( shared => 1 );
+}
+
+
+sub lock {
+ return 1;
+}
+
+
+sub unlock {
+ return 1;
+}
+
+
+sub is_locked {
+ return 0;
+}
+
+
+sub send {
+ # Send a command to R. Do not return the output.
+ my ($self, $cmd) = @_;
+ $self->run($cmd);
+ return 1;
+}
+
+
+sub error {
+ return '';
+}
+
+
+sub clean_up {
+ return 1;
+}
+
+
+1;
--- /dev/null
+package Statistics::R::Win32;
+
+
+use strict;
+use warnings;
+use File::Spec::Functions;
+use File::DosGlob qw( glob );
+use Env qw( @PATH $PROGRAMFILES );
+
+use vars qw{@ISA @EXPORT};
+
+BEGIN {
+ @ISA = 'Exporter';
+ @EXPORT = qw{
+ win32_path_adjust
+ win32_space_quote
+ win32_space_escape
+ win32_double_bs
+ };
+}
+
+our $PROG = 'R';
+
+
+=head1 NAME
+
+Statistics::R::Win32 - Helper functions for Statistics::R on MS Windows platforms
+
+=head1 DESCRIPTION
+
+Helper functions to deal with environment variables and escape file paths on
+MS Windows platforms.
+
+=head1 SYNOPSIS
+
+ if ( $^O =~ m/^(?:.*?win32|dos)$/i ) {
+ require Statistics::R::Win32;
+ }
+
+=head1 METHODS
+
+=over 4
+
+=item win32_path_adjust( )
+
+Looks for paths where R could be installed, e.g. C:\Program Files (x86)\R-2.1\bin
+and add it to the PATH environment variable.
+
+=item win32_space_quote( )
+
+Takes a path and return a path that is surrounded by double-quotes if the path
+contains whitespaces. Example:
+
+ C:\Program Files\R\bin\x64
+
+becomes
+
+ "C:\Program Files\R\bin\x64"
+
+=item win32_space_escape( )
+
+Takes a path and return a path where spaces have been escaped by a backslash.
+contains whitespaces. Example:
+
+ C:\Program Files\R\bin\x64
+
+becomes
+
+ C:\Program\ Files\R\bin\x64
+
+=item win32_double_bs
+
+Takes a path and return a path where each backslash was replaced by two backslashes.
+ Example:
+
+ C:\Program Files\R\bin\x64
+
+becomes
+
+ C:\\Program Files\\R\\bin\\x64
+
+=back
+
+=head1 SEE ALSO
+
+=over 4
+
+=item * L<Statistics::R>
+
+=back
+
+=head1 AUTHORS
+
+Florent Angly E<lt>florent.angly@gmail.comE<gt> (2011 rewrite)
+
+Graciliano M. P. E<lt>gm@virtuasites.com.brE<gt> (original code)
+
+=head1 MAINTAINER
+
+Brian Cassidy E<lt>bricas@cpan.orgE<gt>
+
+=head1 COPYRIGHT & LICENSE
+
+This program is free software; you can redistribute it and/or
+modify it under the same terms as Perl itself.
+
+=head1 BUGS
+
+All complex software has bugs lurking in it, and this program is no exception.
+If you find a bug, please report it on the CPAN Tracker of Statistics::R:
+L<http://rt.cpan.org/Dist/Display.html?Name=Statistics-R>
+
+Bug reports, suggestions and patches are welcome. The Statistics::R code is
+developed on Github (L<http://github.com/bricas/statistics-r>) and is under Git
+revision control. To get the latest revision, run:
+
+ git clone git@github.com:bricas/statistics-r.git
+
+=cut
+
+
+# Adjust PATH environment variable when this module is loaded.
+win32_path_adjust();
+
+
+sub win32_path_adjust {
+ # Find potential R directories in the Windows Program Files folder and add
+ # them to the PATH environment variable
+
+ # Find potential R directories, e.g. C:\Program Files (x86)\R-2.1\bin
+ # or C:\Program Files\R\bin\x64
+ my @r_dirs;
+ my @prog_file_dirs;
+ if (defined $PROGRAMFILES) {
+ push @prog_file_dirs, $PROGRAMFILES; # e.g. C:\Program Files (x86)
+ my ($programfiles_2) = ($PROGRAMFILES =~ m/^(.*) \(/); # e.g. C:\Program Files
+ push @prog_file_dirs, $programfiles_2 if not $programfiles_2 eq $PROGRAMFILES;
+ }
+ for my $prog_file_dir ( @prog_file_dirs ) {
+ next if not -d $prog_file_dir;
+ my @subdirs;
+ my @globs = ( catfile($prog_file_dir, $PROG), catfile($prog_file_dir, $PROG.'-*') );
+ for my $glob ( @globs ) {
+ $glob = win32_space_escape( win32_double_bs( $glob ) );
+ push @subdirs, glob $glob; # DosGlob
+ }
+ for my $subdir (@subdirs) {
+ my $subdir2 = catfile($subdir, 'bin');
+ if ( -d $subdir2 ) {
+ my $subdir3 = catfile($subdir2, 'x64');
+ if ( -d $subdir3 ) {
+ push @r_dirs, $subdir3;
+ }
+ push @r_dirs, $subdir2;
+ }
+ push @r_dirs, $subdir;
+ }
+ }
+
+ # Append R directories to PATH (order is important)
+ push @PATH, @r_dirs;
+
+ return 1;
+}
+
+
+sub win32_space_quote {
+ # Quote a path if it contains whitespaces
+ my $path = shift;
+ $path = '"'.$path.'"' if $path =~ /\s/;
+ return $path;
+}
+
+
+sub win32_space_escape {
+ # Escape spaces with a single backslash
+ my $path = shift;
+ $path =~ s/ /\\ /g;
+ return $path;
+}
+
+
+sub win32_double_bs {
+ # Double the backslashes
+ my $path = shift;
+ $path =~ s/\\/\\\\/g;
+ return $path;
+}
+
+
+1;
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More tests => 1;
+
+
+BEGIN {
+ use_ok( 'Statistics::R' );
+}
+
+diag( "Testing Statistics::R $Statistics::R::VERSION, Perl $], $^X" );
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More;
+
+eval 'use Test::Pod 1.00';
+plan skip_all => 'Test::Pod 1.00 required for testing POD' if $@;
+all_pod_files_ok();
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More;
+use Statistics::R;
+
+plan tests => 20;
+
+
+my $R;
+
+my $file = "file.ps";
+
+ok $R = Statistics::R->new();
+
+ok $R->startR();
+
+ok $R->restartR();
+
+ok $R->send(qq`postscript("$file" , horizontal=FALSE , width=500 , height=500 , pointsize=1)`);
+
+ok $R->send( q`plot(c(1, 5, 10), type = "l")` );
+
+ok $R->send( qq`x = 123 \n print(x)` );
+
+my $ret = $R->read();
+ok $ret =~ /^\[\d+\]\s+123\s*$/;
+
+ok $R->send( qq`x = 456 \n print(x)` );
+
+$ret = $R->read();
+ok $ret =~ /^\[\d+\]\s+456\s*$/;
+
+ok $R->lock;
+
+ok $R->unlock;
+
+is $R->is_blocked, 0;
+
+is $R->is_locked, 0;
+
+ok $R->clean_up();
+
+ok $R->Rbin() =~ /\S+/;
+
+ok $R->stopR();
+
+is $R->error(), '';
+
+ok $R->start_shared();
+
+ok $R->start_sharedR();
+
+ok $R->stop();
+
+unlink $file;
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More;
+use Statistics::R;
+
+plan tests => 15;
+
+
+my ($R, $expected);
+
+my $file = 'file.ps';
+
+ok $R = Statistics::R->new();
+
+ok $R->bin() =~ /\S+/, 'Binary';
+
+$expected = '';
+is $R->run( ), $expected;
+
+$expected = '';
+is $R->run( qq`postscript("$file" , horizontal=FALSE , width=500 , height=500 , pointsize=1)`), $expected, 'Basic';
+
+$expected = '';
+is $R->run( q`plot(c(1, 5, 10), type = "l")` ), $expected;
+
+$expected =
+'null device
+ 1 ';
+is $R->run( q`dev.off()` ), $expected; # RT bug #66190
+
+ok -e $file; # RT bug #70307
+unlink $file;
+
+$expected =
+'loop iteration 1
+loop iteration 2
+loop iteration 3';
+is $R->run( q`for (j in 1:3) { cat("loop iteration "); cat(j); cat("\n") }` ), $expected;
+
+$expected = 'Some innocuous message on stderr';
+is $R->run( q`write("Some innocuous message on stderr", stderr())` ), $expected, 'IO';
+
+$expected = 'Some innocuous message on stdout';
+is $R->run( q`write("Some innocuous message on stdout", stdout())` ), $expected;
+
+$expected = '[1] 123';
+is $R->run( qq`x <- 123 \n print(x)` ), $expected, 'Multi-line commands';
+
+$expected = '456';
+my $cmd1 = 'x <- 456 ; write.table(x, file="", row.names=FALSE, col.names=FALSE)';
+is $R->run( $cmd1 ), $expected; # RT bug #70314
+
+my $cmd2 = <<EOF;
+a <- 2
+b <- 5
+c <- a * b
+print('ok')
+EOF
+$expected = '[1] "ok"';
+is $R->run( $cmd2 ), $expected, 'Heredoc commands';
+
+$expected =
+'456
+[1] "ok"';
+is $R->run( $cmd1, $cmd2 ), $expected, 'Multiple commands';
+
+$expected =
+'Some innocuous message on stderr
+loop iteration: [1] 1
+loop iteration: [1] 2
+loop iteration: [1] 3
+Some innocuous message on stdout
+
+[1] 123
+456
+[1] "ok"';
+is $R->run_from_file( './t/data/script.R' ), $expected, 'Commands from file';
+
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More;
+use Statistics::R;
+use Cwd;
+
+plan tests => 16;
+
+
+my $R;
+
+my $initial_dir = cwd;
+
+ok $R = Statistics::R->new();
+
+is $R->is_started, 0;
+
+is $R->is_shared, 0;
+
+ok $R->stop();
+
+ok $R->stop();
+
+ok $R->start();
+
+is $R->is_started, 1;
+
+is $R->is_shared, 0;
+
+ok $R->start();
+
+is cwd, $initial_dir; # Bug RT #6724 and #70307
+
+ok $R->restart();
+
+ok $R->stop();
+
+ok $R->start( shared => 1);
+
+is $R->is_shared, 1;
+
+ok $R->stop();
+
+is cwd, $initial_dir; # Bug RT #6724 and #70307
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More;
+use Statistics::R;
+
+plan tests => 29;
+
+
+my ($R1, $R2, $R3, $R4);
+
+ok $R1 = Statistics::R->new( shared => 1 ), 'Starting in shared mode';
+ok $R2 = Statistics::R->new( shared => 1 );
+ok $R3 = Statistics::R->new( shared => 1 );
+ok $R4 = Statistics::R->new( shared => 1 );
+
+is $R1->is_shared, 1;
+is $R2->is_shared, 1;
+is $R3->is_shared, 1;
+is $R4->is_shared, 1;
+
+ok $R2->start;
+ok $R4->start;
+
+is $R1->is_started, 1;
+is $R2->is_started, 1;
+is $R3->is_started, 1;
+is $R4->is_started, 1;
+
+ok $R1 =~ m/\d+/, 'PIDs';
+is $R1->pid, $R2->pid;
+is $R1->pid, $R3->pid;
+is $R1->pid, $R4->pid;
+
+ok $R1->set( 'x', "string" ), 'Sharing data';
+
+ok $R2->set( 'y', 3 );
+
+is $R2->get( 'x' ), "string";
+
+ok $R3->set( 'z', 10 );
+
+is $R4->run( q`a <- y / z` ), '';
+
+is $R4->get( 'a' ), 0.3;
+
+ok $R3->stop();
+
+is $R1->is_started, 0;
+is $R2->is_started, 0;
+is $R3->is_started, 0;
+is $R4->is_started, 0;
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More;
+use Statistics::R;
+
+plan tests => 86;
+
+
+my ($R, $input, $output);
+
+
+ok $R = Statistics::R->new();
+
+
+$input = undef;
+ok $R->set('x', $input), 'undef';
+is $R->get('x'), undef;
+
+
+$input = 123;
+ok $R->set('x', $input);
+ok $output = $R->get('x'), 'integer';
+is ref($output), '';
+is $output, 123;
+
+
+# R default number of digits is 7
+$input = 0.93945768644;
+ok $R->set('x', $input), 'real number';
+ok $output = $R->get('x');
+is ref($output), '';
+is $output, sprintf("%.7f", $input);
+
+
+$input = "apocalypse";
+ok $R->set('x', $input), 'string';
+ok $output = $R->get('x');
+is ref($output), '';
+is $output, "apocalypse";
+
+
+$input = "a string";
+ok $R->set('x', $input), 'string with witespace';
+ok $output = $R->get('x');
+is ref($output), '';
+is $output, "a string";
+
+
+$input = 'gi|57116681|ref|NC_000962.2|';
+ok $R->set('x', $input), 'number-containing string';
+ok $output = $R->get('x');
+is ref($output), '';
+is $output, 'gi|57116681|ref|NC_000962.2|';
+
+
+# Mixed arrays are considered as string arrays by R, thus there is no digit limit
+$input = [123, "a string", 'two strings', 0.93945768644];
+ok $R->set('x', $input), 'mixed array';
+ok $output = $R->get('x');
+is ref($output), 'ARRAY';
+is $$output[0], 123;
+is $$output[1], "a string";
+is $$output[2], "two strings";
+is $$output[3], 0.93945768644;
+
+
+# RT bug #71988
+$input = [ q{statistics-r-0.22}, "abc 123 xyz", 'gi|57116681|ref|NC_000962.2|'];
+ok $R->set('x', $input), 'array of number-containing strings';
+ok $output = $R->get('x');
+is ref($output), 'ARRAY';
+is $$output[0], q{statistics-r-0.22};
+is $$output[1], "abc 123 xyz";
+is $$output[2], 'gi|57116681|ref|NC_000962.2|';
+
+
+$input = [123,142,147,153,145,151,165,129,133,150,142,154,131,146,151,136,147,156,141,155,147,165,168,146,148,146,142,145,161,157,154,137,130,161,130,156,140,145,154];
+ok $R->set('x', $input), 'large array of integers';
+ok $output = $R->get('x');
+is ref($output), 'ARRAY';
+for (my $i = 0; $i < scalar @$input; $i++) {
+ is $$output[$i], $$input[$i];
+}
+
+
+$input = [1, 2, 3];
+ok $R->set('x', $input), 'data frame';
+is $R->run(q`a <- data.frame(first=x)`), '';
+ok $output = $R->get('a$first');
+is ref($output), 'ARRAY';
+is $$output[0], 1;
+is $$output[1], 2;
+is $$output[2], 3;
+
+
+ok $R->stop();
+
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More;
+use Statistics::R;
+
+plan tests => 10003;
+
+
+# Test that the IOs are well-oiled. In Statistics::R version 0.20, a slight
+# imprecision in the regular expression to parse the output stream caused a
+# problem was apparent only once every few thousands times
+
+my ($R, $input);
+
+ok $R = Statistics::R->new();
+
+ok $R->set('x', $input);
+
+for my $i (1 .. 10000) {
+ is($R->get('x'), undef);
+}
+
+ok $R->stop();
--- /dev/null
+#! perl
+
+use strict;
+use warnings;
+use Test::More;
+use Statistics::R;
+
+plan tests => 3;
+
+my $R;
+
+ok $R = Statistics::R->new();
+
+
+eval {
+ $R->run( q`print "ASDF"` );
+};
+ok $@, 'Syntax error';
+# Actual error message vary depending on locale
+
+
+eval {
+ $R->run( q`print(ASDF)` );
+};
+ok $@, 'Runtime error';
+
--- /dev/null
+postscript("file2.ps" , horizontal=FALSE , width=500 , height=500 , pointsize=1)
+
+plot(c(1, 5, 10), type = "l")
+
+dev.off()
+
+unlink("file2.ps")
+
+for (j in 1:3) { cat("loop iteration: "); print(j); }
+
+write("Some innocuous message on stdout\n", stdout())
+
+write("Some innocuous message on stderr\n", stderr())
+
+x <- 123
+print(x)
+
+x <- 456 ; write.table(x, file="", row.names=FALSE, col.names=FALSE)
+
+a <- 2
+b <- 5
+c <- a * b
+print('ok')
+
projects / deb_pkgs / libstatistics-r-perl.git / commitdiff