Homec4science
Diffusion Instrument Control (Toptica-laser-control-class) Browse

rINSTCONTROL/@MyMetadata/MyMetadata.m
d4e1dcbb5291Toptica-laser-control…

Last Change
Raw File

MyMetadata.m
View Options

classdef MyMetadata < dynamicprops & matlab.mixin.Copyable
properties (Access=public)
% Header sections are separated by [hdr_spec,hdr_spec,hdr_spec]
hdr_spec='=='
% Data starts from the line next to [hdr_spec,end_header,hdr_spec]
end_header='Data'
% Columns are separated by this symbol (space-tab by default)
column_sep=' \t'
% Comments start from this symbol
comment_sep='%'
line_sep='\r\n'
% Limit for column padding. Variables which take more space than
% this limit are ignored when calculating the padding length.
pad_lim=12
end
properties (Access=private)
PropHandles %Used to store the handles of the dynamic properties
end
properties (Dependent=true)
field_names
end
methods
function [this,varargout]=MyMetadata(varargin)
P=MyClassParser(this);
addParameter(P,'load_path','',@ischar);
processInputs(P,this, varargin{:});
load_path=P.Results.load_path;
this.PropHandles=struct();
if ~isempty(load_path)
varargout{1}=load(this, load_path);
end
end
%Fields are added using this command. The field is a property of
%the class, populated by the parameters with their values and
%string specifications for later printing
function addField(this, field_name)
assert(isvarname(field_name),...
'Field name must be a valid MATLAB variable name.');
assert(~ismember(field_name, this.field_names),...
['Field with name ',field_name,' already exists.']);
this.PropHandles.(field_name)=addprop(this,field_name);
this.PropHandles.(field_name).SetAccess='protected';
this.PropHandles.(field_name).NonCopyable=false;
this.(field_name)=struct();
end
%Deletes a named field
function deleteField(this, field_name)
assert(isvarname(field_name),...
'Field name must be a valid MATLAB variable name.');
assert(ismember(field_name,this.field_names),...
['Attemped to delete field ''',field_name ...
,''' that does not exist.']);
% Delete dynamic property from the class
delete(this.PropHandles.(field_name));
% Erase entry in PropHandles
this.PropHandles=rmfield(this.PropHandles,field_name);
end
%Clears the object of all fields
function clear(this)
cellfun(@(x) deleteField(this, x), this.field_names)
end
% Copy all the fields of another Metadata object to this object
function addMetadata(this, Metadata)
assert(isa(Metadata,'MyMetadata'),...
'Input must be of class MyMetadata, current input is %s',...
class(Metadata));
assert(~any(ismember(this.field_names,Metadata.field_names)),...
['The metadata being added contain fields with the same ',...
'name. This conflict must be resolved before adding'])
for i=1:length(Metadata.field_names)
fn=Metadata.field_names{i};
addField(this,fn);
param_names=fieldnames(Metadata.(fn));
cellfun(@(x) addParam(this,fn,x,Metadata.(fn).(x).value,...
'fmt_spec', Metadata.(fn).(x).fmt_spec,...
'comment', Metadata.(fn).(x).comment),...
param_names);
end
end
%Adds a parameter to a specified field. The field must be created
%first.
function addParam(this, field_name, param_name, value, varargin)
assert(ischar(field_name),'Field name must be a char');
assert(isprop(this,field_name),...
'%s is not a field, use addField to add it',param_name);
assert(ischar(param_name),'Parameter name must be a char');
p=inputParser();
% Format specifier for printing the value
addParameter(p,'fmt_spec','',@ischar);
% Comment to be added to the line
addParameter(p,'comment','',@ischar);
addParameter(p,'SubStruct',struct('type',{},'subs',{}),...
@isstruct)
parse(p,varargin{:});
S=p.Results.SubStruct;
comment=p.Results.comment;
%Making sure that the comment does not
%contain new line or carriage return characters, which would
%mess up formating when saving metadata
newline_smb={sprintf('\n'),sprintf('\r')}; %#ok<SPRINTFN>
if contains(comment, newline_smb)
warning(['Comment string for ''%s'' must not contain ',...
'''\\n'' and ''\\r'' symbols, replacing them ',...
'with space.'], param_name);
comment=replace(comment, newline_smb,' ');
end
this.(field_name).(param_name).comment=comment;
if isempty(S)
% Assign value directly
this.(field_name).(param_name).value=value;
else
% Assign using subscript structure based on the value class
if ischar(value)
% char
tmp='';
else
% numeric
tmp=[];
end
this.(field_name).(param_name).value=subsasgn(tmp,S,value);
end
this.(field_name).(param_name).fmt_spec=p.Results.fmt_spec;
end
function save(this, filename, varargin)
createFile(filename, varargin{:});
addTimeField(this);
for i=1:length(this.field_names)
printField(this, this.field_names{i}, filename);
end
printEndMarker(this, filename);
end
function printField(this, field_name, filename, varargin)
%Takes optional inputs
p=inputParser();
addParameter(p,'title',field_name);
parse(p,varargin{:});
title_str=p.Results.title;
ParStruct=this.(field_name);
%Compose the list of parameter names expanded over subscripts
%except for those which are already character arrays
par_names=fieldnames(ParStruct);
%Expand parameters over subscripts, except for the character
%arrays
exp_par_names=cell(1, length(par_names));
maxnmarr=zeros(1, length(par_names));
for i=1:length(par_names)
tmpval=ParStruct.(par_names{i}).value;
exp_par_names{i}=printSubs(tmpval, ...
'own_name', par_names{i}, ...
'expansion_test',@(y) ~ischar(y));
%Max name length for this parameter including subscripts
maxnmarr(i)=max(cellfun(@(x) length(x), exp_par_names{i}));
end
%Calculate width of the name column
name_pad_length=min(max(maxnmarr), this.pad_lim);
%Compose list of parameter values converted to char strings
par_strs=cell(1, length(par_names));
%Width of the values column will be the maximum parameter
%string width
val_pad_length=0;
for i=1:length(par_names)
TmpPar=ParStruct.(par_names{i});
for j=1:length(exp_par_names{i})
tmpnm=exp_par_names{i}{j};
TmpS=str2substruct(tmpnm);
if isempty(TmpS)
tmpval=TmpPar.value;
else
tmpval=subsref(TmpPar.value, TmpS);
end
%Do check to detect unsupported data type
if ischar(tmpval)&&~isvector(tmpval)&&~isempty(tmpval)
warning(['Argument ''%s'' is a multi-dimensional ',...
'character array. It will be converted to ',...
'single string during saving. Use cell',...
'arrays to save data as a set of separate ',...
'strings.'],tmpnm)
% Flatten
tmpval=tmpval(:);
end
%Check for new line symbols in strings
if (ischar(tmpval)||isstring(tmpval)) && ...
any(ismember({newline,sprintf('\r')},tmpval))
warning(['String value must not contain ',...
'''\\n'' and ''\\r'' symbols, replacing them ',...
'with '' ''']);
tmpval=replace(tmpval,{newline,sprintf('\r')},' ');
end
if isempty(TmpPar.fmt_spec)
% Convert to string with format specifier
% extracted from the varaible calss
par_strs{i}{j}=var2str(tmpval);
else
par_strs{i}{j}=sprintf(TmpPar.fmt_spec, tmpval);
end
% Find maximum length to determine the colum width,
% but, for beauty, do not account for variables with
% excessively long value strings
tmplen=length(par_strs{i});
if (val_pad_length<tmplen)&&(tmplen<=this.pad_lim)
val_pad_length=tmplen;
end
end
end
fileID=fopen(filename,'a');
%Prints the header separator
fprintf(fileID,[this.hdr_spec, title_str,...
this.hdr_spec, this.line_sep]);
cs=this.column_sep;
ls=this.line_sep;
data_fmt_spec=[sprintf('%%-%is',name_pad_length),...
cs, sprintf('%%-%is',val_pad_length)];
for i=1:length(par_names)
%Capitalize first letter of comment
if ~isempty(ParStruct.(par_names{i}).comment)
fmt_comment=[this.comment_sep,' '...
upper(ParStruct.(par_names{i}).comment(1)),...
ParStruct.(par_names{i}).comment(2:end)];
else
fmt_comment='';
end
for j=1:length(exp_par_names{i})
if j==1
% Print comment in the first line
fprintf(fileID, [data_fmt_spec,cs,'%s',ls],...
exp_par_names{i}{j},par_strs{i}{j},fmt_comment);
else
fprintf(fileID, [data_fmt_spec,ls],...
exp_par_names{i}{j}, par_strs{i}{j});
end
end
end
%Prints an extra line separator at the end
fprintf(fileID, ls);
fclose(fileID);
end
%Print terminator that separates header from data
function printEndMarker(this, filename)
fileID=fopen(filename,'a');
fprintf(fileID,...
[this.hdr_spec, this.end_header, ...
this.hdr_spec, this.line_sep]);
fclose(fileID);
end
%Adds time header
function addTimeField(this)
if isprop(this,'Time')
deleteField(this,'Time')
end
dv=datevec(datetime('now'));
addField(this,'Time');
addParam(this,'Time','Year',dv(1),'fmt_spec','%i');
addParam(this,'Time','Month',dv(2),'fmt_spec','%i');
addParam(this,'Time','Day',dv(3),'fmt_spec','%i');
addParam(this,'Time','Hour',dv(4),'fmt_spec','%i');
addParam(this,'Time','Minute',dv(5),'fmt_spec','%i');
addParam(this,'Time','Second',floor(dv(6)),'fmt_spec','%i');
addParam(this,'Time','Millisecond',...
round(1000*(dv(6)-floor(dv(6)))),'fmt_spec','%i');
end
function n_end_header=load(this, filename, varargin)
%Before we load, we clear all existing fields
clear(this);
fileID=fopen(filename,'r');
title_exp=[this.hdr_spec,'(\w.*)',this.hdr_spec];
%Loop initialization
line_no=0;
curr_title='';
%Loop continues until we reach the next header or we reach
%the end of the file
while ~feof(fileID)
line_no=line_no+1;
%Grabs the current line
curr_line=fgetl(fileID);
%Gives an error if the file is empty, i.e. fgetl returns -1
if curr_line==-1
error('Tried to read empty file. Aborting.')
end
%Skips if current line is empty
if isempty(curr_line)
continue
end
title_token=regexp(curr_line,title_exp,'once','tokens');
%If we find a title, first check if it is the specified
%end header. Then change the title if a title was found,
%then if no title was found, put the data under the current
%title.
if ismember(this.end_header, title_token)
break
elseif ~isempty(title_token)
% Apply genvarname for sefety in case the title string
% is not a proper variable name
curr_title=genvarname(title_token{1});
addField(this, curr_title);
%This runs if there was no match for the header regular
%expression, i.e. the current line is not a filed
%separator, and the current line is not empty. We then
%add this line to the current field (curr_title), possibly
%iterating over the parameter subscripts.
elseif ~isempty(curr_title)
% First separate the comment if present
tmp=regexp(curr_line,this.comment_sep,'split','once');
if length(tmp)>1
% the line has comment
comment_str=tmp{2};
else
comment_str='';
end
% Then process name-value pair. Regard everything after
% the first column separator as value.
tmp=regexp(tmp{1},this.column_sep,'split','once');
if length(tmp)<2
% Ignore the line if a name-value pair is not found
continue
else
% Attempt convertion of value to number
val=str2doubleHedged(strtrim(tmp{2}));
end
% Infer the variable name and subscript reference
try
[S, name]=str2substruct(strtrim(tmp{1}));
catch
name='';
end
if isempty(name)
% Ignore the line if variable name is not missing
continue
elseif ismember(name, fieldnames(this.(curr_title)))
% If the variable name already presents among
% parameters, add new subscript value
this.(curr_title).(name).value= ...
subsasgn(this.(curr_title).(name).value,S,val);
else
% Add new parameter with comment
addParam(this, curr_title, name, val,...
'SubStruct', S, 'comment', comment_str);
end
end
end
fclose(fileID);
if isempty(this.field_names)
warning('No metadata found, continuing without metadata.')
n_end_header=1;
else
n_end_header=line_no;
end
end
end
methods
function field_names=get.field_names(this)
field_names=fieldnames(this.PropHandles);
end
end
end
c4science · Help