File Coverage

blib/lib/PDLA/Slices.pm

Criterion	Covered	Total	%
statement	90	102	88.2
branch	35	46	76.0
condition	9	18	50.0
subroutine	14	15	93.3
pod	0	9	0.0
total	148	190	77.8

#
# GENERATED WITH PDLA::PP! Don't modify!
#
package PDLA::Slices;

@EXPORT_OK  = qw( PDLA::PP affineinternal PDLA::PP s_identity PDLA::PP index PDLA::PP index1d PDLA::PP index2d  indexND indexNDb PDLA::PP rangeb PDLA::PP rld PDLA::PP rle PDLA::PP flowconvert PDLA::PP converttypei PDLA::PP _clump_int PDLA::PP xchg PDLA::PP mv PDLA::PP oslice  using PDLA::PP affine PDLA::PP diagonalI PDLA::PP lags PDLA::PP splitdim PDLA::PP rotate PDLA::PP threadI PDLA::PP identvaff PDLA::PP unthread  dice dice_axis  slice PDLA::PP sliceb );
%EXPORT_TAGS = (Func=>[@EXPORT_OK]);

use PDLA::Core;
use PDLA::Exporter;
use DynaLoader;




   @ISA    = ( 'PDLA::Exporter','DynaLoader' );
   push @PDLA::Core::PP, __PACKAGE__;
   bootstrap PDLA::Slices ;





=head1 NAME

PDLA::Slices -- Indexing, slicing, and dicing

=head1 SYNOPSIS

  use PDLA;
  $x = ones(3,3);
  $y = $x->slice('-1:0,(1)');
  $c = $x->dummy(2);


=head1 DESCRIPTION

This package provides many of the powerful PerlDL core index
manipulation routines.  These routines mostly allow two-way data flow,
so you can modify your data in the most convenient representation.
For example, you can make a 1000x1000 unit matrix with

 $x = zeroes(1000,1000);
 $x->diagonal(0,1) ++;

which is quite efficient. See L and L for
more examples.

Slicing is so central to the PDLA language that a special compile-time
syntax has been introduced to handle it compactly; see L
for details.

PDLA indexing and slicing functions usually include two-way data flow,
so that you can separate the actions of reshaping your data structures
and modifying the data themselves.  Two special methods, L and
L, help you control the data flow connection between related
variables.

 $y = $x->slice("1:3"); # Slice maintains a link between $x and $y.
 $y += 5;               # $x is changed!

If you want to force a physical copy and no data flow, you can copy or
sever the slice expression:

 $y = $x->slice("1:3")->copy;
 $y += 5;               # $x is not changed.

 $y = $x->slice("1:3")->sever;
 $y += 5;               # $x is not changed.

The difference between C and C is that sever acts on (and
returns) its argument, while copy produces a disconnected copy.  If you
say

 $y = $x->slice("1:3");
 $c = $y->sever;

then the variables C<$y> and C<$c> point to the same object but with
C<-Ecopy> they would not.

=cut

use PDLA::Core ':Internal';
use Scalar::Util 'blessed';







=head1 FUNCTIONS



=cut






*affineinternal = \&PDLA::affineinternal;





=head2 s_identity

=for sig

  Signature: (P(); C())

=for ref

Internal vaffine identity function.



=for bad

s_identity processes bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*s_identity = \&PDLA::s_identity;





=head2 index

=for sig

  Signature: (a(n); indx ind(); [oca] c())

=for ref

C, C, and C provide rudimentary index indirection.

=for example

 $c = index($source,$ind);
 $c = index1d($source,$ind);
 $c = index2d($source2,$ind1,$ind2);

use the C<$ind> variables as indices to look up values in C<$source>.
The three routines thread slightly differently.

=over 3

=item *

C uses direct threading for 1-D indexing across the 0 dim
of C<$source>.  It can thread over source thread dims or index thread
dims, but not (easily) both: If C<$source> has more than 1
dimension and C<$ind> has more than 0 dimensions, they must agree in
a threading sense.

=item *

C uses a single active dim in C<$ind> to produce a list of
indexed values in the 0 dim of the output - it is useful for
collapsing C<$source> by indexing with a single row of values along
C<$source>'s 0 dimension.  The output has the same number of dims as
C<$source>.  The 0 dim of the output has size 1 if C<$ind> is a
scalar, and the same size as the 0 dim of C<$ind> if it is not. If
C<$ind> and C<$source> both have more than 1 dim, then all dims higher
than 0 must agree in a threading sense.

=item *

C works like C but uses separate piddles for X and Y
coordinates.  For more general N-dimensional indexing, see the
L syntax or L (in particular C,
C, and C).

=back

These functions are two-way, i.e. after

 $c = $x->index(pdl[0,5,8]);
 $c .= pdl [0,2,4];

the changes in C<$c> will flow back to C<$x>.

C provids simple threading:  multiple-dimensioned arrays are treated
as collections of 1-D arrays, so that

 $x = xvals(10,10)+10*yvals(10,10);
 $y = $x->index(3);
 $c = $x->index(9-xvals(10));

puts a single column from C<$x> into C<$y>, and puts a single element
from each column of C<$x> into C<$c>.  If you want to extract multiple
columns from an array in one operation, see L or
L.



=for bad

index barfs if any of the index values are bad.

=cut






*index = \&PDLA::index;





=head2 index1d

=for sig

  Signature: (a(n); indx ind(m); [oca] c(m))

=for ref

C, C, and C provide rudimentary index indirection.

=for example

 $c = index($source,$ind);
 $c = index1d($source,$ind);
 $c = index2d($source2,$ind1,$ind2);

use the C<$ind> variables as indices to look up values in C<$source>.
The three routines thread slightly differently.

=over 3

=item *

C uses direct threading for 1-D indexing across the 0 dim
of C<$source>.  It can thread over source thread dims or index thread
dims, but not (easily) both: If C<$source> has more than 1
dimension and C<$ind> has more than 0 dimensions, they must agree in
a threading sense.

=item *

C uses a single active dim in C<$ind> to produce a list of
indexed values in the 0 dim of the output - it is useful for
collapsing C<$source> by indexing with a single row of values along
C<$source>'s 0 dimension.  The output has the same number of dims as
C<$source>.  The 0 dim of the output has size 1 if C<$ind> is a
scalar, and the same size as the 0 dim of C<$ind> if it is not. If
C<$ind> and C<$source> both have more than 1 dim, then all dims higher
than 0 must agree in a threading sense.

=item *

C works like C but uses separate piddles for X and Y
coordinates.  For more general N-dimensional indexing, see the
L syntax or L (in particular C,
C, and C).

=back

These functions are two-way, i.e. after

 $c = $x->index(pdl[0,5,8]);
 $c .= pdl [0,2,4];

the changes in C<$c> will flow back to C<$x>.

C provids simple threading:  multiple-dimensioned arrays are treated
as collections of 1-D arrays, so that

 $x = xvals(10,10)+10*yvals(10,10);
 $y = $x->index(3);
 $c = $x->index(9-xvals(10));

puts a single column from C<$x> into C<$y>, and puts a single element
from each column of C<$x> into C<$c>.  If you want to extract multiple
columns from an array in one operation, see L or
L.



=for bad

index1d propagates BAD index elements to the output variable.

=cut






*index1d = \&PDLA::index1d;





=head2 index2d

=for sig

  Signature: (a(na,nb); indx inda(); indx indb(); [oca] c())

=for ref

C, C, and C provide rudimentary index indirection.

=for example

 $c = index($source,$ind);
 $c = index1d($source,$ind);
 $c = index2d($source2,$ind1,$ind2);

use the C<$ind> variables as indices to look up values in C<$source>.
The three routines thread slightly differently.

=over 3

=item *

C uses direct threading for 1-D indexing across the 0 dim
of C<$source>.  It can thread over source thread dims or index thread
dims, but not (easily) both: If C<$source> has more than 1
dimension and C<$ind> has more than 0 dimensions, they must agree in
a threading sense.

=item *

C uses a single active dim in C<$ind> to produce a list of
indexed values in the 0 dim of the output - it is useful for
collapsing C<$source> by indexing with a single row of values along
C<$source>'s 0 dimension.  The output has the same number of dims as
C<$source>.  The 0 dim of the output has size 1 if C<$ind> is a
scalar, and the same size as the 0 dim of C<$ind> if it is not. If
C<$ind> and C<$source> both have more than 1 dim, then all dims higher
than 0 must agree in a threading sense.

=item *

C works like C but uses separate piddles for X and Y
coordinates.  For more general N-dimensional indexing, see the
L syntax or L (in particular C,
C, and C).

=back

These functions are two-way, i.e. after

 $c = $x->index(pdl[0,5,8]);
 $c .= pdl [0,2,4];

the changes in C<$c> will flow back to C<$x>.

C provids simple threading:  multiple-dimensioned arrays are treated
as collections of 1-D arrays, so that

 $x = xvals(10,10)+10*yvals(10,10);
 $y = $x->index(3);
 $c = $x->index(9-xvals(10));

puts a single column from C<$x> into C<$y>, and puts a single element
from each column of C<$x> into C<$c>.  If you want to extract multiple
columns from an array in one operation, see L or
L.



=for bad

index2d barfs if either of the index values are bad.

=cut






*index2d = \&PDLA::index2d;




=head2 indexNDb

=for ref

  Backwards-compatibility alias for indexND

=head2 indexND

=for ref

  Find selected elements in an N-D piddle, with optional boundary handling

=for example

  $out = $source->indexND( $index, [$method] )

  $source = 10*xvals(10,10) + yvals(10,10);
  $index  = pdl([[2,3],[4,5]],[[6,7],[8,9]]);
  print $source->indexND( $index );

  [
   [23 45]
   [67 89]
  ]

IndexND collapses C<$index> by lookup into C<$source>.  The
0th dimension of C<$index> is treated as coordinates in C<$source>, and
the return value has the same dimensions as the rest of C<$index>.
The returned elements are looked up from C<$source>.  Dataflow
works -- propagated assignment flows back into C<$source>.

IndexND and IndexNDb were originally separate routines but they are both
now implemented as a call to L, and have identical syntax to
one another.

=cut

sub PDLA::indexND {
        my($source,$index, $boundary) = @_;
        return PDLA::range($source,$index,undef,$boundary);
}

*PDLA::indexNDb = \&PDLA::indexND;




sub PDLA::range {
  my($source,$ind,$sz,$bound) = @_;

# Convert to indx type up front (also handled in rangeb if necessary)
  my $index = (ref $ind && UNIVERSAL::isa($ind,'PDLA') && $ind->type eq 'indx') ? $ind : indx($ind);
  my $size = defined($sz) ? PDLA->pdl($sz) : undef;


  # Handle empty PDLA case: return a properly constructed Empty.
  if($index->isempty) {
      my @sdims= $source->dims;
      splice(@sdims, 0, $index->dim(0) + ($index->dim(0)==0)); # added term is to treat Empty[0] like a single empty coordinate
      unshift(@sdims, $size->list) if(defined($size));
      return PDLA->new_from_specification(0 x ($index->ndims-1), @sdims);
  }


  $index = $index->dummy(0,1) unless $index->ndims;


  # Pack boundary string if necessary
  if(defined $bound) {
    if(ref $bound eq 'ARRAY') {
      my ($s,$el);
      foreach $el(@$bound) {
        barf "Illegal boundary value '$el' in range"
          unless( $el =~ m/^([0123fFtTeEpPmM])/ );
        $s .= $1;
      }
      $bound = $s;
    }
    elsif($bound !~ m/^[0123ftepx]+$/  && $bound =~ m/^([0123ftepx])/i ) {
      $bound = $1;
    }
  }

  no warnings; # shut up about passing undef into rangeb
  $source->rangeb($index,$size,$bound);
}




=head2 rangeb

=for sig

  Signature: (P(); C(); SV *index; SV *size; SV *boundary)

=for ref

Engine for L

=for example

Same calling convention as L, but you must supply all
parameters.  C is marginally faster as it makes a direct PP call,
avoiding the perl argument-parsing step.


=head2 range

=for ref

Extract selected chunks from a source piddle, with boundary conditions

=for example

        $out = $source->range($index,[$size,[$boundary]])

Returns elements or rectangular slices of the original piddle, indexed by
the C<$index> piddle.  C<$source> is an N-dimensional piddle, and C<$index> is
a piddle whose first dimension has size up to N.  Each row of C<$index> is
treated as coordinates of a single value or chunk from C<$source>, specifying
the location(s) to extract.

If you specify a single index location, then range is essentially an expensive
slice, with controllable boundary conditions.

B

C<$index> and C<$size> can be piddles or array refs such as you would
feed to L and its ilk.  If C<$index>'s 0th dimension
has size higher than the number of dimensions in C<$source>, then
C<$source> is treated as though it had trivial dummy dimensions of
size 1, up to the required size to be indexed by C<$index> -- so if
your source array is 1-D and your index array is a list of 3-vectors,
you get two dummy dimensions of size 1 on the end of your source array.

You can extract single elements or N-D rectangular ranges from C<$source>,
by setting C<$size>.  If C<$size> is undef or zero, then you get a single
sample for each row of C<$index>.  This behavior is similar to
L, which is in fact implemented as a call to L.

If C<$size> is positive then you get a range of values from C<$source> at
each location, and the output has extra dimensions allocated for them.
C<$size> can be a scalar, in which case it applies to all dimensions, or an
N-vector, in which case each element is applied independently to the
corresponding dimension in C<$source>.  See below for details.

C<$boundary> is a number, string, or list ref indicating the type of
boundary conditions to use when ranges reach the edge of C<$source>.  If you
specify no boundary conditions the default is to forbid boundary violations
on all axes.  If you specify exactly one boundary condition, it applies to
all axes.  If you specify more (as elements of a list ref, or as a packed
string, see below), then they apply to dimensions in the order in which they
appear, and the last one applies to all subsequent dimensions.  (This is
less difficult than it sounds; see the examples below).

=over 3

=item 0 (synonyms: 'f','forbid') B<(default)>

Ranges are not allowed to cross the boundary of the original PDLA.  Disallowed
ranges throw an error.  The errors are thrown at evaluation time, not
at the time of the range call (this is the same behavior as L).

=item 1 (synonyms: 't','truncate')

Values outside the original piddle get BAD if you've got bad value
support compiled into your PDLA and set the badflag for the source PDLA;
or 0 if you haven't (you must set the badflag if you want BADs for out
of bound values, otherwise you get 0).  Reverse dataflow works OK for
the portion of the child that is in-bounds.  The out-of-bounds part of
the child is reset to (BAD|0) during each dataflow operation, but
execution continues.

=item 2 (synonyms: 'e','x','extend')

Values that would be outside the original piddle point instead to the
nearest allowed value within the piddle.  See the CAVEAT below on
mappings that are not single valued.

=item 3 (synonyms: 'p','periodic')

Periodic boundary conditions apply: the numbers in $index are applied,
strict-modulo the corresponding dimensions of $source.  This is equivalent to
duplicating the $source piddle throughout N-D space.  See the CAVEAT below
about mappings that are not single valued.

=item 4 (synonyms: 'm','mirror')

Mirror-reflection periodic boundary conditions apply.  See the CAVEAT
below about mappings that are not single valued.

=back

The boundary condition identifiers all begin with unique characters, so
you can feed in multiple boundary conditions as either a list ref or a
packed string.  (The packed string is marginally faster to run).  For
example, the four expressions [0,1], ['forbid','truncate'], ['f','t'],
and 'ft' all specify that violating the boundary in the 0th dimension
throws an error, and all other dimensions get truncated.

If you feed in a single string, it is interpreted as a packed boundary
array if all of its characters are valid boundary specifiers (e.g. 'pet'),
but as a single word-style specifier if they are not (e.g. 'forbid').

B

The output threads over both C<$index> and C<$source>.  Because implicit
threading can happen in a couple of ways, a little thought is needed.  The
returned dimension list is stacked up like this:

   (index thread dims), (index dims (size)), (source thread dims)

The first few dims of the output correspond to the extra dims of
C<$index> (beyond the 0 dim). They allow you to pick out individual
ranges from a large, threaded collection.

The middle few dims of the output correspond to the size dims
specified in C<$size>, and contain the range of values that is extracted
at each location in C<$source>.  Every nonzero element of C<$size> is copied to
the dimension list here, so that if you feed in (for example) C<$size
= [2,0,1]> you get an index dim list of C<(2,1)>.

The last few dims of the output correspond to extra dims of C<$source> beyond
the number of dims indexed by C<$index>.  These dims act like ordinary
thread dims, because adding more dims to C<$source> just tacks extra dims
on the end of the output.  Each source thread dim ranges over the entire
corresponding dim of C<$source>.

B: Dataflow is bidirectional.

B:
Here are basic examples of C operation, showing how to get
ranges out of a small matrix.  The first few examples show extraction
and selection of individual chunks.  The last example shows
how to mark loci in the original matrix (using dataflow).

 pdla> $src = 10*xvals(10,5)+yvals(10,5)
 pdla> print $src->range([2,3])    # Cut out a single element
 23
 pdla> print $src->range([2,3],1)  # Cut out a single 1x1 block
 [
  [23]
 ]
 pdla> print $src->range([2,3], [2,1]) # Cut a 2x1 chunk
 [
  [23 33]
 ]
 pdla> print $src->range([[2,3]],[2,1]) # Trivial list of 1 chunk
 [
  [
   [23]
   [33]
  ]
 ]
 pdla> print $src->range([[2,3],[0,1]], [2,1])   # two 2x1 chunks
 [
  [
   [23  1]
   [33 11]
  ]
 ]
 pdla> # A 2x2 collection of 2x1 chunks
 pdla> print $src->range([[[1,1],[2,2]],[[2,3],[0,1]]],[2,1])
 [
  [
   [
    [11 22]
    [23  1]
   ]
   [
    [21 32]
    [33 11]
   ]
  ]
 ]
 pdla> $src = xvals(5,3)*10+yvals(5,3)
 pdla> print $src->range(3,1)  # Thread over y dimension in $src
 [
  [30]
  [31]
  [32]
 ]

 pdla> $src = zeroes(5,4);
 pdla> $src->range(pdl([2,3],[0,1]),pdl(2,1)) .= xvals(2,2,1) + 1
 pdla> print $src
 [
  [0 0 0 0 0]
  [2 2 0 0 0]
  [0 0 0 0 0]
  [0 0 1 1 0]
 ]

B: It's quite possible to select multiple ranges that
intersect.  In that case, modifying the ranges doesn't have a
guaranteed result in the original PDLA -- the result is an arbitrary
choice among the valid values.  For some things that's OK; but for
others it's not. In particular, this doesn't work:

    pdla> $photon_list = new PDLA::RandVar->sample(500)->reshape(2,250)*10
    pdla> histogram = zeroes(10,10)
    pdla> histogram->range($photon_list,1)++;  #not what you wanted

The reason is that if two photons land in the same bin, then that bin
doesn't get incremented twice.  (That may get fixed in a later version...)

B: If C<$index> has too many dimensions compared
to C<$source>, then $source is treated as though it had dummy
dimensions of size 1, up to the required number of dimensions.  These
virtual dummy dimensions have the usual boundary conditions applied to
them.

If the 0 dimension of C<$index> is ludicrously large (if its size is
more than 5 greater than the number of dims in the source PDLA) then
range will insist that you specify a size in every dimension, to make
sure that you know what you're doing.  That catches a common error with
range usage: confusing the initial dim (which is usually small) with another
index dim (perhaps of size 1000).

If the index variable is Empty, then range() always returns the Empty PDLA.
If the index variable is not Empty, indexing it always yields a boundary
violation.  All non-barfing conditions are treated as truncation, since
there are no actual data to return.

B: Because C isn't an affine transformation (it
involves lookup into a list of N-D indices), it is somewhat
memory-inefficient for long lists of ranges, and keeping dataflow open
is much slower than for affine transformations (which don't have to copy
data around).

Doing operations on small subfields of a large range is inefficient
because the engine must flow the entire range back into the original
PDLA with every atomic perl operation, even if you only touch a single element.
One way to speed up such code is to sever your range, so that PDLA
doesn't have to copy the data with each operation, then copy the
elements explicitly at the end of your loop.  Here's an example that
labels each region in a range sequentially, using many small
operations rather than a single xvals assignment:

  ### How to make a collection of small ops run fast with range...
  $x =  $data->range($index, $sizes, $bound)->sever;
  $aa = $data->range($index, $sizes, $bound);
  map { $x($_ - 1) .= $_; } (1..$x->nelem);    # Lots of little ops
  $aa .= $x;

C is a perl front-end to a PP function, C.  Calling
C is marginally faster but requires that you include all arguments.

DEVEL NOTES

* index thread dimensions are effectively clumped internally.  This
makes it easier to loop over the index array but a little more brain-bending
to tease out the algorithm.

=cut



=for bad

rangeb processes bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*rangeb = \&PDLA::rangeb;





=head2 rld

=for sig

  Signature: (indx a(n); b(n); [o]c(m))

=for ref

Run-length decode a vector

Given a vector C<$x> of the numbers of instances of values C<$y>, run-length
decode to C<$c>.

=for example

 rld($x,$y,$c=null);



=for bad

rld does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut




sub PDLA::rld {
  my ($x,$y) = @_;
  my ($c);
  if ($#_ == 2) {
    $c = $_[2];
  } else {
# XXX Need to improve emulation of threading in auto-generating c
    my ($size) = $x->sumover->max;
    my (@dims) = $x->dims;
    shift @dims;
    $c = $y->zeroes($size,@dims);
  }
  &PDLA::_rld_int($x,$y,$c);
  $c;
}


*rld = \&PDLA::rld;





=head2 rle

=for sig

  Signature: (c(n); indx [o]a(m); [o]b(m))

=for ref

Run-length encode a vector

Given vector C<$c>, generate a vector C<$x> with the number of each
element, and a vector C<$y> of the unique values.  New in PDLA 2.017,
only the elements up to the first instance of C<0> in C<$x> are
returned, which makes the common use case of a 1-dimensional C<$c> simpler.
For threaded operation, C<$x> and C<$y> will be large enough
to hold the largest row of C<$y>, and only the elements up to the
first instance of C<0> in each row of C<$x> should be considered.

=for example

 $c = floor(4*random(10));
 rle($c,$x=null,$y=null);
 #or
 ($x,$y) = rle($c);

 #for $c of shape [10, 4]:
 $c = floor(4*random(10,4));
 ($x,$y) = rle($c);

 #to see the results of each row one at a time:
 foreach (0..$c->dim(1)-1){
  my ($as,$bs) = ($x(:,($_)),$y(:,($_)));
  my ($ta,$tb) = where($as,$bs,$as!=0); #only the non-zero elements of $x
  print $c(:,($_)) . " rle==> " , ($ta,$tb) , "\trld==> " . rld($ta,$tb) . "\n";
 }



=for bad

rle does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut




sub PDLA::rle {
  my $c = shift;
  my ($x,$y) = @_==2 ? @_ : (null,null);
  &PDLA::_rle_int($c,$x,$y);
  my $max_ind = ($c->ndims<2) ? ($x!=0)->sumover-1 :
                                ($x!=0)->clump(1..$x->ndims-1)->sumover->max-1;
  return ($x->slice("0:$max_ind"),$y->slice("0:$max_ind"));
}


*rle = \&PDLA::rle;





*flowconvert = \&PDLA::flowconvert;





*converttypei = \&PDLA::converttypei;





*_clump_int = \&PDLA::_clump_int;





=head2 xchg

=for sig

  Signature: (P(); C(); int n1; int n2)

=for ref

exchange two dimensions

Negative dimension indices count from the end.

The command

=for example

 $y = $x->xchg(2,3);

creates C<$y> to be like C<$x> except that the dimensions 2 and 3
are exchanged with each other i.e.

 $y->at(5,3,2,8) == $x->at(5,3,8,2)



=for bad

xchg does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*xchg = \&PDLA::xchg;




=head2 reorder

=for ref

Re-orders the dimensions of a PDLA based on the supplied list.

Similar to the L method, this method re-orders the dimensions
of a PDLA. While the L method swaps the position of two dimensions,
the reorder method can change the positions of many dimensions at
once.

=for usage

 # Completely reverse the dimension order of a 6-Dim array.
 $reOrderedPDLA = $pdl->reorder(5,4,3,2,1,0);

The argument to reorder is an array representing where the current dimensions
should go in the new array. In the above usage, the argument to reorder
C<(5,4,3,2,1,0)>
indicates that the old dimensions (C<$pdl>'s dims) should be re-arranged to make the
new pdl (C<$reOrderPDLA>) according to the following:

   Old Position   New Position
   ------------   ------------
   5              0
   4              1
   3              2
   2              3
   1              4
   0              5

You do not need to specify all dimensions, only a complete set
starting at position 0.  (Extra dimensions are left where they are).
This means, for example, that you can reorder() the X and Y dimensions of
an image, and not care whether it is an RGB image with a third dimension running
across color plane.

=for example

Example:

 pdla> $x = sequence(5,3,2);       # Create a 3-d Array
 pdla> p $x
 [
  [
   [ 0  1  2  3  4]
   [ 5  6  7  8  9]
   [10 11 12 13 14]
  ]
  [
   [15 16 17 18 19]
   [20 21 22 23 24]
   [25 26 27 28 29]
  ]
 ]
 pdla> p $x->reorder(2,1,0); # Reverse the order of the 3-D PDLA
 [
  [
   [ 0 15]
   [ 5 20]
   [10 25]
  ]
  [
   [ 1 16]
   [ 6 21]
   [11 26]
  ]
  [
   [ 2 17]
   [ 7 22]
   [12 27]
  ]
  [
   [ 3 18]
   [ 8 23]
   [13 28]
  ]
  [
   [ 4 19]
   [ 9 24]
   [14 29]
  ]
 ]

The above is a simple example that could be duplicated by calling
C<$x-Exchg(0,2)>, but it demonstrates the basic functionality of reorder.

As this is an index function, any modifications to the
result PDLA will change the parent.

=cut

sub PDLA::reorder {
        my ($pdl,@newDimOrder) = @_;

        my $arrayMax = $#newDimOrder;

        #Error Checking:
        if( $pdl->getndims < scalar(@newDimOrder) ){
                my $errString = "PDLA::reorder: Number of elements (".scalar(@newDimOrder).") in newDimOrder array exceeds\n";
                $errString .= "the number of dims in the supplied PDLA (".$pdl->getndims.")";
                barf($errString);
        }

        # Check to make sure all the dims are within bounds
        for my $i(0..$#newDimOrder) {
          my $dim = $newDimOrder[$i];
          if($dim < 0 || $dim > $#newDimOrder) {
              my $errString = "PDLA::reorder: Dim index $newDimOrder[$i] out of range in position $i\n(range is 0-$#newDimOrder)";
              barf($errString);
          }
        }

        # Checking that they are all present and also not duplicated is done by thread() [I think]

        # a quicker way to do the reorder
        return $pdl->thread(@newDimOrder)->unthread(0);
}





=head2 mv

=for sig

  Signature: (P(); C(); int n1; int n2)

=for ref

move a dimension to another position

The command

=for example

 $y = $x->mv(4,1);

creates C<$y> to be like C<$x> except that the dimension 4 is moved to the
place 1, so:

 $y->at(1,2,3,4,5,6) == $x->at(1,5,2,3,4,6);

The other dimensions are moved accordingly.
Negative dimension indices count from the end.


=for bad

mv does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*mv = \&PDLA::mv;





=head2 oslice

=for sig

  Signature: (P(); C(); char* str)

=for ref

DEPRECATED:  'oslice' is the original 'slice' routine in pre-2.006_006
versions of PDLA.  It is left here for reference but will disappear in
PDLA 3.000

Extract a rectangular slice of a piddle, from a string specifier.

C was the original Swiss-army-knife PDLA indexing routine, but is
largely superseded by the L source prefilter
and its associated L method.  It is still used as the
basic underlying slicing engine for L,
and is especially useful in particular niche applications.

=for example

 $x->slice('1:3');  #  return the second to fourth elements of $x
 $x->slice('3:1');  #  reverse the above
 $x->slice('-2:1'); #  return last-but-one to second elements of $x

The argument string is a comma-separated list of what to do
for each dimension. The current formats include
the following, where I, I and I are integers and can
take legal array index values (including -1 etc):

=over 8

=item :

takes the whole dimension intact.

=item ''

(nothing) is a synonym for ":"
(This means that C<$x-Eslice(':,3')> is equal to C<$x-Eslice(',3')>).

=item a

slices only this value out of the corresponding dimension.

=item (a)

means the same as "a" by itself except that the resulting
dimension of length one is deleted (so if C<$x> has dims C<(3,4,5)> then
C<$x-Eslice(':,(2),:')> has dimensions C<(3,5)> whereas
C<$x-Eslice(':,2,:')> has dimensions C<(3,1,5))>.

=item a:b

slices the range I to I inclusive out of the dimension.

=item a:b:c

slices the range I to I, with step I (i.e. C<3:7:2> gives the indices
C<(3,5,7)>). This may be confusing to Matlab users but several other
packages already use this syntax.


=item '*'

inserts an extra dimension of width 1 and

=item '*a'

inserts an extra (dummy) dimension of width I.

=back

An extension is planned for a later stage allowing
C<$x-Eslice('(=1),(=1|5:8),3:6(=1),4:6')>
to express a multidimensional diagonal of C<$x>.

Trivial out-of-bounds slicing is allowed: if you slice a source
dimension that doesn't exist, but only index the 0th element, then
C treats the source as if there were a dummy dimension there.
The following are all equivalent:

        xvals(5)->dummy(1,1)->slice('(2),0')  # Add dummy dim, then slice
        xvals(5)->slice('(2),0')              # Out-of-bounds slice adds dim.
        xvals(5)->slice((2),0)                # NiceSlice syntax
        xvals(5)->((2))->dummy(0,1)           # NiceSlice syntax

This is an error:

        xvals(5)->slice('(2),1')        # nontrivial out-of-bounds slice dies

Because slicing doesn't directly manipulate the source and destination
pdl -- it just sets up a transformation between them -- indexing errors
often aren't reported until later.  This is either a bug or a feature,
depending on whether you prefer error-reporting clarity or speed of execution.



=for bad

oslice does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*oslice = \&PDLA::oslice;




=head2 using

=for ref

Returns array of column numbers requested

=for usage

 line $pdl->using(1,2);

Plot, as a line, column 1 of C<$pdl> vs. column 2

=for example

 pdla> $pdl = rcols("file");
 pdla> line $pdl->using(1,2);

=cut

*using = \&PDLA::using;
sub PDLA::using {
  my ($x,@ind)=@_;
  @ind = list $ind[0] if (blessed($ind[0]) && $ind[0]->isa('PDLA'));
  foreach (@ind) {
    $_ = $x->slice("($_)");
  }
  @ind;
}





*affine = \&PDLA::affine;





=head2 diagonalI

=for sig

  Signature: (P(); C(); SV *list)

=for ref

Returns the multidimensional diagonal over the specified dimensions.

The diagonal is placed at the first (by number) dimension that is
diagonalized.
The other diagonalized dimensions are removed. So if C<$x> has dimensions
C<(5,3,5,4,6,5)> then after

=for example

 $y = $x->diagonal(0,2,5);

the piddle C<$y> has dimensions C<(5,3,4,6)> and
C<$y-Eat(2,1,0,1)> refers
to C<$x-Eat(2,1,2,0,1,2)>.

NOTE: diagonal doesn't handle threadids correctly. XXX FIX


=for bad

diagonalI does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*diagonalI = \&PDLA::diagonalI;





=head2 lags

=for sig

  Signature: (P(); C(); int nthdim; int step; int n)

=for ref

Returns a piddle of lags to parent.

Usage:

=for usage

  $lags = $x->lags($nthdim,$step,$nlags);

I.e. if C<$x> contains

 [0,1,2,3,4,5,6,7]

then

=for example

 $y = $x->lags(0,2,2);

is a (5,2) matrix

 [2,3,4,5,6,7]
 [0,1,2,3,4,5]

This order of returned indices is kept because the function is
called "lags" i.e. the nth lag is n steps behind the original.

C<$step> and C<$nlags> must be positive. C<$nthdim> can be
negative and will then be counted from the last dim backwards
in the usual way (-1 = last dim).


=for bad

lags does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*lags = \&PDLA::lags;





=head2 splitdim

=for sig

  Signature: (P(); C(); int nthdim; int nsp)

=for ref

Splits a dimension in the parent piddle (opposite of L)

After

=for example

 $y = $x->splitdim(2,3);

the expression

 $y->at(6,4,m,n,3,6) == $x->at(6,4,m+3*n)

is always true (C has to be less than 3).


=for bad

splitdim does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*splitdim = \&PDLA::splitdim;





=head2 rotate

=for sig

  Signature: (x(n); indx shift(); [oca]y(n))

=for ref

Shift vector elements along with wrap. Flows data back&forth.


=for bad

rotate does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*rotate = \&PDLA::rotate;





=head2 threadI

=for sig

  Signature: (P(); C(); int id; SV *list)

=for ref

internal

Put some dimensions to a threadid.

=for example

 $y = $x->threadI(0,1,5); # thread over dims 1,5 in id 1



=for bad

threadI does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*threadI = \&PDLA::threadI;





=head2 identvaff

=for sig

  Signature: (P(); C())

=for ref

A vaffine identity transformation (includes thread_id copying).

Mainly for internal use.


=for bad

identvaff does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*identvaff = \&PDLA::identvaff;





=head2 unthread

=for sig

  Signature: (P(); C(); int atind)

=for ref

All threaded dimensions are made real again.

See [TBD Doc] for details and examples.


=for bad

unthread does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*unthread = \&PDLA::unthread;




=head2 dice

=for ref

Dice rows/columns/planes out of a PDLA using indexes for
each dimension.

This function can be used to extract irregular subsets
along many dimension of a PDLA, e.g. only certain rows in an image,
or planes in a cube. This can of course be done with
the usual dimension tricks but this saves having to
figure it out each time!

This method is similar in functionality to the L
method, but L requires that contiguous ranges or ranges
with constant offset be extracted. ( i.e. L requires
ranges of the form C<1,2,3,4,5> or C<2,4,6,8,10>). Because of this
restriction, L is more memory efficient and slightly faster
than dice

=for usage

 $slice = $data->dice([0,2,6],[2,1,6]); # Dicing a 2-D array

The arguments to dice are arrays (or 1D PDLAs) for each dimension
in the PDLA. These arrays are used as indexes to which rows/columns/cubes,etc
to dice-out (or extract) from the C<$data> PDLA.

Use C to select all indices along a given dimension (compare also
L). As usual (in slicing methods) trailing
dimensions can be omitted implying C'es for those.

=for example

 pdla> $x = sequence(10,4)
 pdla> p $x
 [
  [ 0  1  2  3  4  5  6  7  8  9]
  [10 11 12 13 14 15 16 17 18 19]
  [20 21 22 23 24 25 26 27 28 29]
  [30 31 32 33 34 35 36 37 38 39]
 ]
 pdla> p $x->dice([1,2],[0,3]) # Select columns 1,2 and rows 0,3
 [
  [ 1  2]
  [31 32]
 ]
 pdla> p $x->dice(X,[0,3])
 [
  [ 0  1  2  3  4  5  6  7  8  9]
  [30 31 32 33 34 35 36 37 38 39]
 ]
 pdla> p $x->dice([0,2,5])
 [
  [ 0  2  5]
  [10 12 15]
  [20 22 25]
  [30 32 35]
 ]

As this is an index function, any modifications to the
slice change the parent (use the C<.=> operator).

=cut

sub PDLA::dice {

        my $self = shift;
        my @dim_indexes = @_;  # array of dimension indexes

        # Check that the number of dim indexes <=
        #    number of dimensions in the PDLA
        my $no_indexes = scalar(@dim_indexes);
        my $noDims = $self->getndims;
        barf("PDLA::dice: Number of index arrays ($no_indexes) not equal to the dimensions of the PDLA ($noDims")
                         if $no_indexes > $noDims;
        my $index;
        my $pdlIndex;
        my $outputPDLA=$self;
        my $indexNo = 0;

        # Go thru each index array and dice the input PDLA:
        foreach $index(@dim_indexes){
                $outputPDLA = $outputPDLA->dice_axis($indexNo,$index)
                        unless !ref $index && $index eq 'X';

                $indexNo++;
        }

        return $outputPDLA;
}
*dice = \&PDLA::dice;


=head2 dice_axis

=for ref

Dice rows/columns/planes from a single PDLA axis (dimension)
using index along a specified axis

This function can be used to extract irregular subsets
along any dimension, e.g. only certain rows in an image,
or planes in a cube. This can of course be done with
the usual dimension tricks but this saves having to
figure it out each time!

=for usage

 $slice = $data->dice_axis($axis,$index);

=for example

 pdla> $x = sequence(10,4)
 pdla> $idx = pdl(1,2)
 pdla> p $x->dice_axis(0,$idx) # Select columns
 [
  [ 1  2]
  [11 12]
  [21 22]
  [31 32]
 ]
 pdla> $t = $x->dice_axis(1,$idx) # Select rows
 pdla> $t.=0
 pdla> p $x
 [
  [ 0  1  2  3  4  5  6  7  8  9]
  [ 0  0  0  0  0  0  0  0  0  0]
  [ 0  0  0  0  0  0  0  0  0  0]
  [30 31 32 33 34 35 36 37 38 39]
 ]

The trick to using this is that the index selects
elements along the dimensions specified, so if you
have a 2D image C will select certain C values
- i.e. extract columns

As this is an index function, any modifications to the
slice change the parent.

=cut

sub PDLA::dice_axis {
  my($self,$axis,$idx) = @_;

  # Convert to PDLAs: array refs using new, otherwise use topdl:
  my $ix = (ref($idx) eq 'ARRAY') ? ref($self)->new($idx) : ref($self)->topdl($idx);
  my $n = $self->getndims;
  my $x = $ix->getndims;
  barf("index_axis: index must be <=1D") if $x>1;
  return $self->mv($axis,0)->index1d($ix)->mv(0,$axis);
}
*dice_axis = \&PDLA::dice_axis;





=head2 slice

=for usage

  $slice = $data->slice([2,3],'x',[2,2,0],"-1:1:-1", "*3");

=for ref

Extract rectangular slices of a piddle, from a string specifier,
an array ref specifier, or a combination.

C is the main method for extracting regions of PDLAs and
manipulating their dimensionality.  You can call it directly or
via he L source prefilter that extends
Perl syntax o include array slicing.

C can extract regions along each dimension of a source PDLA,
subsample or reverse those regions, dice each dimension by selecting a
list of locations along it, or basic PDLA indexing routine.  The
selected subfield remains connected to the original PDLA via dataflow.
In most cases this neither allocates more memory nor slows down
subsequent operations on either of the two connected PDLAs.

You pass in a list of arguments.  Each term in the list controls
the disposition of one axis of the source PDLA and/or returned PDLA.
Each term can be a string-format cut specifier, a list ref that
gives the same information without recourse to string manipulation,
or a PDLA with up to 1 dimension giving indices along that axis that
should be selected.

If you want to pass in a single string specifier for the entire
operation, you can pass in a comma-delimited list as the first
argument.  C detects this condition and splits the string
into a regular argument list.  This calling style is fully
backwards compatible with C calls from before PDLA 2.006.

B

If a particular argument to C is a string, it is parsed as a
selection, an affine slice, or a dummy dimension depending on the
form.  Leading or trailing whitespace in any part of each specifier is
ignored (though it is not ignored within numbers).

=over 3

=item C<< '' >>, C<< : >>, or C<< X >> -- keep

The empty string, C<:>, or C cause the entire corresponding
dimension to be kept unchanged.


=item C<<  >> -- selection

A single number alone causes a single index to be selected from the
corresponding dimension.  The dimension is kept (and reduced to size
1) in the output.

=item C<< () >> -- selection and collapse

A single number in parenthesis causes a single index to be selected
from the corresponding dimension.  The dimension is discarded
(completely eliminated) in the output.

=item C<< : >> -- select an inclusive range

Two numbers separated by a colon selects a range of values from the
corresponding axis, e.g. C<< 3:4 >> selects elements 3 and 4 along the
corresponding axis, and reduces that axis to size 2 in the output.
Both numbers are regularized so that you can address the last element
of the axis with an index of C< -1 >.  If, after regularization, the
two numbers are the same, then exactly one element gets selected (just
like the C<<  >> case).  If, after regulariation, the second number
is lower than the first, then the resulting slice counts down rather
than up -- e.g. C<-1:0> will return the entire axis, in reversed
order.

=item C<< :: >> -- select a range with explicit step

If you include a third parameter, it is the stride of the extracted
range.  For example, C<< 0:-1:2 >> will sample every other element
across the complete dimension.  Specifying a stride of 1 prevents
autoreversal -- so to ensure that your slice is *always* forward
you can specify, e.g., C<< 2:$n:1 >>.  In that case, an "impossible"
slice gets an Empty PDLA (with 0 elements along the corresponding
dimension), so you can generate an Empty PDLA with a slice of the
form C<< 2:1:1 >>.

=item C<< * >> -- insert a dummy dimension

Dummy dimensions aren't present in the original source and are
"mocked up" to match dimensional slots, by repeating the data
in the original PDLA some number of times.  An asterisk followed
by a number produces a dummy dimension in the output, for
example C<< *2 >> will generate a dimension of size 2 at
the corresponding location in the output dim list.  Omitting
the numeber (and using just an asterisk) inserts a dummy dimension
of size 1.

=back

B

If you feed in an ARRAY ref as a slice term, then it can have
0-3 elements.  The first element is the start of the slice along
the corresponding dim; the second is the end; and the third is
the stepsize.  Different combinations of inputs give the same
flexibility as the string syntax.

=over 3

=item C<< [] >> - keep dim intact

An empty ARRAY ref keeps the entire corresponding dim

=item C<< [ 'X' ] >> - keep dim intact

=item C<< [ '*',$n ] >> - generate a dummy dim of size $n

If $n is missing, you get a dummy dim of size 1.

=item C<< [ $dex, , 0 ] >> - collapse and discard dim

C<$dex> must be a single value.  It is used to index
the source, and the corresponding dimension is discarded.

=item C<< [ $start, $end ] >> - collect inclusive slice

In the simple two-number case, you get a slice that runs
up or down (as appropriate) to connect $start and $end.

=item C<< [ $start, $end, $inc ] >> - collect inclusive slice

The three-number case works exactly like the three-number
string case above.

=back

B

If you pass in a 0- or 1-D PDLA as a slicing argument, the
corresponding dimension is "diced" -- you get one position
along the corresponding dim, per element of the indexing PDLA,
e.g. C<< $x->slice( pdl(3,4,9)) >> gives you elements 3, 4, and
9 along the 0 dim of C<< $x >>.

Because dicing is not an affine transformation, it is slower than
direct slicing even though the syntax is convenient.


=for example

 $x->slice('1:3');  #  return the second to fourth elements of $x
 $x->slice('3:1');  #  reverse the above
 $x->slice('-2:1'); #  return last-but-one to second elements of $x

 $x->slice([1,3]);  # Same as above three calls, but using array ref syntax
 $x->slice([3,1]);
 $x->slice([-2,1]);

=cut


##############################
# 'slice' is now implemented as a small Perl wrapper around
# a PP call.  This permits unification of the former slice,
# dice, and nslice into a single call.  At the moment, dicing
# is implemented a bit kludgily (it is detected in the Perl
# front-end), but it is serviceable.
#  --CED 12-Sep-2013

*slice = \&PDLA::slice;
sub PDLA::slice (;@) {
    my ($source, @others) = @_;

    # Deal with dicing.  This is lame and slow compared to the
    # faster slicing, but works okay.  We loop over each argument,
    # and if it's a PDLA we dispatch it in the most straightforward
    # way.  Single-element and zero-element PDLAs are trivial and get
    # converted into slices for faster handling later.

    for my $i(0..$#others) {
      if( blessed($others[$i]) && $others[$i]->isa('PDLA') ) {
        my $idx = $others[$i];
        if($idx->ndims > 1) {
          barf("slice: dicing parameters must be at most 1D (arg $i)\n");
        }
        my $nlm = $idx->nelem;

        if($nlm > 1) {

	   #### More than one element - we have to dice (darn it).
           my $n = $source->getndims;
           $source = $source->mv($i,0)->index1d($idx)->mv(0,$i);
           $others[$i] = '';

        }
	elsif($nlm) {

           #### One element - convert to a regular slice.
           $others[$i] = $idx->flat->at(0);

        }
	else {

           #### Zero elements -- force an extended empty.
           $others[$i] = "1:0:1";
        }
      }
    }

    PDLA::sliceb($source,\@others);
}





=head2 sliceb

=for sig

  Signature: (P(); C(); SV *args)


=for ref

info not available


=for bad

sliceb does not process bad values.
It will set the bad-value flag of all output piddles if the flag is set for any of the input piddles.


=cut






*sliceb = \&PDLA::sliceb;



;


=head1 BUGS

For the moment, you can't slice one of the zero-length dims of an
empty piddle.  It is not clear how to implement this in a way that makes
sense.

Many types of index errors are reported far from the indexing
operation that caused them.  This is caused by the underlying architecture:
slice() sets up a mapping between variables, but that mapping isn't
tested for correctness until it is used (potentially much later).

=head1 AUTHOR

Copyright (C) 1997 Tuomas J. Lukka.  Contributions by
Craig DeForest, [e-mail].
Documentation contributions by David Mertens.
All rights reserved. There is no warranty. You are allowed
to redistribute this software / documentation under certain
conditions. For details, see the file COPYING in the PDLA
distribution. If this file is separated from the PDLA distribution,
the copyright notice should be included in the file.

=cut





# Exit with OK status

1;