Actual source code: PetscBinaryRead.m
petsc-3.10.5 2019-03-28
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      1: function [varargout] = PetscBinaryRead(inarg,varargin)
      2: %
      3: %   [varargout] = PetscBinaryRead(inarg,['complex',false or true],['indices','int32' or 'int64'],['cell',cnt],['precision','float64' or 'float32'])
      4: %
      5: %  Reads in PETSc binary file matrices or vectors
      6: %  emits as Matlab sparse matrice or vectors.
      7: %
      8: %  [] indices optional arguments
      9: %  There are no [] in the arguments
     10: %
     11: %  Examples: A = PetscBinaryRead('myfile'); read from file
     12: %            b = PetscBinaryRead(1024);   read from socket
     13: %            c = PetscBinaryRead();       read from default socket PETSc uses
     14: %
     15: %  Argument may be file name (string), socket number (integer)
     16: %  or any Matlab class that provides the read() and close() methods
     17: %  [We provide PetscOpenFile() and PetscOpenSocket() for binary files and sockets]
     18: %  For example: fd = PetscOpenFile('filename');
     19: %                a = PetscBinaryRead(fd);
     20: %                b = PetscBinaryRead(fd);
     21: %
     22: %  'complex', true indicates the numbers in the file are complex, that is PETSc was built with --with-scalar-type=complex
     23: %  'indices','int64' indicates the PETSc program was built with --with-64-bit-indices
     24: %  'cell',cnt  means return a Matlab cell array containing the first cnt objects in the file, use 10,000 to read in all objects
     25: %  'precision','float32' indicates the PETSc program was built with --with-precision=single
     26: %
     27: %  Examples:  A = PetscBinaryRead('myfile','cell',10000);  read all objects in file
     28: %             A = PetscBinaryRead(1024,'cell',2);  read two objects from socket
     29: %
     30: if nargin == 0
     31:   fd = PetscOpenSocket();
     32: else if ischar(inarg)
     33:   fd = PetscOpenFile(inarg);
     34: else if isnumeric(inarg)
     35:   fd = PetscOpenSocket(inarg);
     36: else % assume it is a PetscOpenFile or PetscOpenSocket object and handles read()
     37:   fd = inarg;
     38: end
     39: end
     40: end

     42: indices = 'int32';
     43: precision = 'float64';
     44: arecell = 0;
     45: arecomplex = false;

     47: tnargin = nargin;
     48: for l=1:nargin-2
     49:   if ischar(varargin{l}) && strcmpi(varargin{l},'indices')
     50:     tnargin = min(l,tnargin-1);
     51:     indices = varargin{l+1};
     52:   end
     53:   if ischar(varargin{l}) && strcmpi(varargin{l},'precision')
     54:     tnargin = min(l,tnargin-1);
     55:     precision = varargin{l+1};
     56:   end
     57:   if ischar(varargin{l}) && strcmpi(varargin{l},'cell')
     58:     tnargin = min(l,tnargin-1);
     59:     arecell = varargin{l+1};
     60:   end
     61:   if ischar(varargin{l}) && strcmpi(varargin{l},'complex')
     62:     tnargin = min(l,tnargin-1);
     63:     arecomplex = varargin{l+1};
     64:   end
     65: end

     67: if strcmp(precision,'float128')
     68:   precision = 'float64';
     69:   system(['./convert -f ' inarg]);
     70:   fd = PetscOpenFile([inarg '_double']);
     71: end
     72:
     73: if arecell
     74:   narg = arecell;
     75:   rsult = cell(1);
     76: else
     77:   narg = nargout;
     78: end

     80: for l=1:narg
     81:   header = double(read(fd,1,indices));
     82:   if isempty(header)
     83:     if arecell
     84:       varargout(1) = {result};
     85:       return
     86:     else
     87:       disp('File/Socket does not have that many items')
     88:     end
     89:     return
     90:   end
     91:   if header == 1211216 % Petsc Mat Object
     92:
     93:     header = double(read(fd,3,indices));
     94:     m      = header(1);
     95:     n      = header(2);
     96:     nz     = header(3);
     97:     if (nz == -1)
     98:       if arecomplex
     99:         s     = read(fd,2*m*n,precision);
    100:         iReal = 1:2:n*m*2-1;
    101:         iImag = iReal +1 ;
    102:         A     = complex(reshape(s(iReal),n,m)',reshape(s(iImag),n,m)') ;
    103:       else
    104:         s   = read(fd,m*n,precision);
    105:         A   = reshape(s,n,m)';
    106:       end
    107:     else
    108:       nnz = double(read(fd,m,indices));  %nonzeros per row
    109:       sum_nz = sum(nnz);
    110:       if(sum_nz ~=nz)
    111:         str = sprintf('No-Nonzeros sum-rowlengths do not match %d %d',nz,sum_nz);
    112:         error(str);
    113:       end
    114:       j   = double(read(fd,nz,indices)) + 1;
    115:       if arecomplex
    116:         s   = read(fd,2*nz,precision);
    117:       else
    118:         s   = read(fd,nz,precision);
    119:       end
    120:       i   = ones(nz,1);
    121:       cnt = 1;
    122:       for k=1:m
    123:         next = cnt+nnz(k)-1;
    124:         i(cnt:next,1) = (double(k))*ones(nnz(k),1);
    125:         cnt = next+1;
    126:       end
    127:       if arecomplex
    128:         A = sparse(i,j,complex(s(1:2:2*nz),s(2:2:2*nz)),m,n,nz);
    129:       else
    130:         A = sparse(i,j,s,m,n,nz);
    131:       end
    132:     end
    133:     if arecell
    134:       result{l} = A;
    135:     else
    136:       varargout(l) = {A};
    137:     end
    138:   elseif  header == 1211214 % Petsc Vec Object
    139:     m = double(read(fd,1,indices));
    140:     if arecomplex
    141:       v = read(fd,2*m,precision);
    142:       v = complex(v(1:2:2*m),v(2:2:2*m));
    143:     else
    144:       v = read(fd,m,precision);
    145:     end
    146:     if arecell
    147:       result{l} = v;
    148:     else
    149:       varargout(l) = {v};
    150:     end

    152:   elseif  header == 1211213 % single real number
    153:     v = read(fd,1,precision);

    155:     if arecell
    156:       result{l} = v;
    157:     else
    158:       varargout(l) = {v};
    159:     end

    161:   elseif  header == 1211218 % Petsc IS Object
    162:     m = double(read(fd,1,indices));
    163:     v = read(fd,m,'int') + 1; % Indexing in Matlab starts at 1, 0 in PETSc
    164:     if arecell
    165:       result{l} = v;
    166:     else
    167:       varargout(l) = {v};
    168:     end

    170:   elseif header == 1211219 % Petsc Bag Object
    171:     b = PetscBagRead(fd);
    172:     if arecell
    173:       result{l} = b;
    174:     else
    175:       varargout(l) = {b};
    176:     end

    178:   elseif header == 1211221 % Petsc DM Object
    179:     m  = double(read(fd,7,indices));
    180:     me = double(read(fd,5,indices));
    181:     b = [' dm ' int2str(m(3)) ' by ' int2str(m(4)) ' by ' int2str(m(5))];
    182:     if arecell
    183:       result{l} = b;
    184:     else
    185:       varargout(l) = {b};
    186:     end

    188:   else
    189:     disp(['Found unrecogonized header ' int2str(header) ' in file. If your file contains complex numbers'])
    190:     disp(' then call PetscBinaryRead() with "complex",true as two additional arguments')
    191:     return
    192:   end

    194: end

    196: if arecell
    197:   varargout(1) = {result};
    198: end

    200: % close the reader if we opened it

    202: if nargin > 0
    203:   if (ischar(inarg) || isinteger(inarg)) close(fd); end;
    204: end