[MOBY-guts] biomoby commit
Eddie Kawas
kawas at dev.open-bio.org
Wed May 7 18:16:52 UTC 2008
kawas
Wed May 7 14:16:52 EDT 2008
Update of /home/repository/moby/moby-live/Perl/MOBY-Server/inc/Module
In directory dev.open-bio.org:/tmp/cvs-serv9661/Perl/MOBY-Server/inc/Module
Modified Files:
Install.pm
Log Message:
updated the Module::Install libraries to version 0.72
moby-live/Perl/MOBY-Server/inc/Module Install.pm,1.1,1.2
===================================================================
RCS file: /home/repository/moby/moby-live/Perl/MOBY-Server/inc/Module/Install.pm,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Perl/MOBY-Server/inc/Module/Install.pm 2008/02/21 00:21:28 1.1
+++ /home/repository/moby/moby-live/Perl/MOBY-Server/inc/Module/Install.pm 2008/05/07 18:16:52 1.2
@@ -17,20 +17,30 @@
# 3. The ./inc/ version of Module::Install loads
# }
-use 5.004;
+BEGIN {
+ require 5.004;
+}
use strict 'vars';
use vars qw{$VERSION};
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 = '0.67';
+ # 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 = '0.72';
+
+ *inc::Module::Install::VERSION = *VERSION;
+ @inc::Module::Install::ISA = __PACKAGE__;
+
}
+
+
+
+
# 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.
@@ -38,26 +48,29 @@
# 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";
+unless ( $INC{$file} ) { die <<"END_DIE" }
+
Please invoke ${\__PACKAGE__} with:
- use inc::${\__PACKAGE__};
+ use inc::${\__PACKAGE__};
not:
- use ${\__PACKAGE__};
+ use ${\__PACKAGE__};
END_DIE
-}
+
+
+
+
# 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 and (stat($0))[9] > time ) {
- die << "END_DIE";
+if ( -f $0 and (stat($0))[9] > time ) { die <<"END_DIE" }
+
Your installer $0 has a modification time in the future.
This is known to create infinite loops in make.
@@ -65,115 +78,142 @@
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 or -f 'Build.PL' ) { 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));
+
+
+
+
use Cwd ();
use File::Find ();
use File::Path ();
use FindBin;
-*inc::Module::Install::VERSION = *VERSION;
- at inc::Module::Install::ISA = __PACKAGE__;
-
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;
- }
- $$sym =~ /([^:]+)$/ or die "Cannot autoload $who - $sym";
- unshift @_, ($self, $1);
- goto &{$self->can('call')} unless uc($1) eq $1;
- };
+ my $self = shift;
+ my $who = $self->_caller;
+ my $cwd = Cwd::cwd();
+ my $sym = "${who}::AUTOLOAD";
+ $sym->{$cwd} = sub {
+ my $pwd = Cwd::cwd();
+ if ( my $code = $sym->{$pwd} ) {
+ # delegate back to parent dirs
+ goto &$code unless $cwd eq $pwd;
+ }
+ $$sym =~ /([^:]+)$/ or die "Cannot autoload $who - $sym";
+ unshift @_, ( $self, $1 );
+ goto &{$self->can('call')} unless uc($1) eq $1;
+ };
}
sub import {
- my $class = shift;
- my $self = $class->new(@_);
- my $who = $self->_caller;
-
- unless ( -f $self->{file} ) {
- require "$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"};
- }
-
- *{"${who}::AUTOLOAD"} = $self->autoload;
- $self->preload;
-
- # Unregister loader and worker packages so subdirs can use them again
- delete $INC{"$self->{file}"};
- delete $INC{"$self->{path}.pm"};
+ my $class = shift;
+ my $self = $class->new(@_);
+ my $who = $self->_caller;
+
+ unless ( -f $self->{file} ) {
+ require "$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"};
+ }
+
+ *{"${who}::AUTOLOAD"} = $self->autoload;
+ $self->preload;
+
+ # Unregister loader and worker packages so subdirs can use them again
+ delete $INC{"$self->{file}"};
+ delete $INC{"$self->{path}.pm"};
+
+ return 1;
}
sub preload {
- my ($self) = @_;
-
- unless ( $self->{extensions} ) {
- $self->load_extensions(
- "$self->{prefix}/$self->{path}", $self
- );
- }
-
- my @exts = @{$self->{extensions}};
- unless ( @exts ) {
- my $admin = $self->{admin};
- @exts = $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 $name ( sort keys %seen ) {
- *{"${who}::$name"} = sub {
- ${"${who}::AUTOLOAD"} = "${who}::$name";
- goto &{"${who}::AUTOLOAD"};
- };
- }
+ my $self = shift;
+ unless ( $self->{extensions} ) {
+ $self->load_extensions(
+ "$self->{prefix}/$self->{path}", $self
+ );
+ }
+
+ my @exts = @{$self->{extensions}};
+ unless ( @exts ) {
+ my $admin = $self->{admin};
+ @exts = $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 $name ( sort keys %seen ) {
+ *{"${who}::$name"} = sub {
+ ${"${who}::AUTOLOAD"} = "${who}::$name";
+ goto &{"${who}::AUTOLOAD"};
+ };
+ }
}
sub new {
- my ($class, %args) = @_;
+ my ($class, %args) = @_;
- # 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";
+ # 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 );
+ bless( \%args, $class );
}
sub call {
@@ -184,98 +224,130 @@
}
sub load {
- my ($self, $method) = @_;
-
- $self->load_extensions(
- "$self->{prefix}/$self->{path}", $self
- ) unless $self->{extensions};
+ my ($self, $method) = @_;
- foreach my $obj (@{$self->{extensions}}) {
- return $obj if $obj->can($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";
+ 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;
+ my $obj = $admin->load($method, 1);
+ push @{$self->{extensions}}, $obj;
- $obj;
+ $obj;
}
sub load_extensions {
- my ($self, $path, $top) = @_;
+ my ($self, $path, $top) = @_;
- unless ( grep { lc $_ eq lc $self->{prefix} } @INC ) {
- unshift @INC, $self->{prefix};
- }
-
- foreach my $rv ( $self->find_extensions($path) ) {
- my ($file, $pkg) = @{$rv};
- next if $self->{pathnames}{$pkg};
-
- local $@;
- my $new = eval { require $file; $pkg->can('new') };
- unless ( $new ) {
- warn $@ if $@;
- next;
- }
- $self->{pathnames}{$pkg} = delete $INC{$file};
- push @{$self->{extensions}}, &{$new}($pkg, _top => $top );
- }
+ unless ( grep { lc $_ eq lc $self->{prefix} } @INC ) {
+ unshift @INC, $self->{prefix};
+ }
+
+ foreach my $rv ( $self->find_extensions($path) ) {
+ my ($file, $pkg) = @{$rv};
+ next if $self->{pathnames}{$pkg};
+
+ local $@;
+ my $new = eval { require $file; $pkg->can('new') };
+ unless ( $new ) {
+ warn $@ if $@;
+ next;
+ }
+ $self->{pathnames}{$pkg} = delete $INC{$file};
+ push @{$self->{extensions}}, &{$new}($pkg, _top => $top );
+ }
- $self->{extensions} ||= [];
+ $self->{extensions} ||= [];
}
sub find_extensions {
- my ($self, $path) = @_;
+ my ($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;
- 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) ) {
- open PKGFILE, "<$subpath.pm" or die "find_extensions: Can't open $subpath.pm: $!";
- my $in_pod = 0;
- while ( <PKGFILE> ) {
- $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;
- }
- }
- close PKGFILE;
- }
+ # 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;
+ push @found, [ $file, $pkg ];
+ }, $path ) if -d $path;
- @found;
+ @found;
}
+
+
+
+
+#####################################################################
+# Utility Functions
+
sub _caller {
- my $depth = 0;
- my $call = caller($depth);
- while ( $call eq __PACKAGE__ ) {
- $depth++;
- $call = caller($depth);
- }
- return $call;
+ my $depth = 0;
+ my $call = caller($depth);
+ while ( $call eq __PACKAGE__ ) {
+ $depth++;
+ $call = caller($depth);
+ }
+ return $call;
+}
+
+sub _read {
+ local *FH;
+ open FH, "< $_[0]" or die "open($_[0]): $!";
+ my $str = do { local $/; <FH> };
+ close FH or die "close($_[0]): $!";
+ return $str;
+}
+
+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]): $!";
+}
+
+sub _version {
+ my $s = shift || 0;
+ $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;
}
1;
+
+# Copyright 2008 Adam Kennedy.
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