source: trunk/src/check_files.m @ 588

Last change on this file since 588 was 588, checked in by sommeria, 8 years ago

tps_coeff_field introduced and several bugs corrected

File size: 11.0 KB
RevLine 
[357]1%'check_files': check the path, modification date and svn version for all the
2%  function in the toolbox UVMAT. Called at the opening of uvmat. Adds the
3%  uvmat path to the Matlab path if needed.
4%----------------------------------------------------------------------
[497]5% function [checkmsg,date_str,ver]=check_files
[357]6%
7% OUTPUT:
[497]8% checkmsg: error message listing functions whose paths are not in the directory of uvmat.m
[357]9% date_str: date of the most recent modification of a file in the toolbox
10% ver : svn version in case this is a  svn repository
11
12%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13%  Copyright Joel Sommeria, 2008, LEGI / CNRS-UJF-INPG, sommeria@coriolis-legi.org.
14%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15%     This file is part of the toolbox UVMAT.
16%
17%     UVMAT is free software; you can redistribute it and/or modify
18%     it under the terms of the GNU General Public License as published by
19%     the Free Software Foundation; either version 2 of the License, or
20%     (at your option) any later version.
21%
22%     UVMAT is distributed in the hope that it will be useful,
23%     but WITHOUT ANY WARRANTY; without even the implied warranty of
24%     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
25%     GNU General Public License (file UVMAT/COPYING.txt) for more details.
26%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27
[497]28function [checkmsg,date_str,svn_info]=check_files
29checkmsg={};%default
[357]30svn_info.rep_rev=[];
31svn_info.cur_rev=[];
32svn_info.status=[];
33list_fct={...
[581]34    'xmltree';...%function for editing xml files (toolbox outside uvmat)
[570]35    'browse_data';...% function for scanning directories in a project/campaign
36    'browse_data.fig';...% GUI corresponding to dataview
[515]37    'calc_field_interp';...% defines fields (velocity, vort, div...) from civx data and calculate them
38    'calc_field_tps';...% defines fields (velocity, vort, div...) and calculate them
[357]39    'cell2tab';... %transform a Matlab cell in a character array suitable for display in a table
40    'check_files';...
41    'civ';...   %function associated with the interface 'civ.fig' for PIV and spline interpolation
42    'civ.fig';...
43    'civ_3D';... function associated with the interface 'civ_3D.fig' for PIV in volume (TODO: combine with civ.m)
44    'civ_3D.fig';...
45    'civ_matlab';...% civ programs, Matlab version (called by civ.m, option Civprogram/Matlab in the upper menu bar)
46    'close_fig';...% function  activated when a figure is closed
47    'copyfields';...% copy fields between two matlab structures
48    'create_grid';...% called by the GUI geometry_calib to create a physical grid
49    'create_grid.fig';...% GUI corresponding to create_grid.m
50    'delete_object';...%delete a projection object, defined by its index in the Uvmat list or by its graphic handle
[475]51    'displ_uvmat';...
[357]52    'editxml';...%display and edit xml files using a xls schema
53    'editxml.fig';...%interface for editxml
54    'fileparts_uvmat';...% extracts the root name,field indexes and nomenclature type from an input filename
[497]55    'fill_GUI';...%  fill a GUI with a set of parameters from a Matlab structure
[476]56    'filter_tps';...% find the thin plate spline coefficients for interpolation-smoothing
[512]57    'find_field_cells';...% group the variables of a 'field object' into 'field cells' and specify their structure
[357]58    'find_file_series';...%check the content of an input file and find the corresponding file series
[498]59    'find_imadoc';...% find the ImaDoc xml file associated with a given input file
[357]60    'fullfile_uvmat';...%creates a file name from a root name and indices.
61    'geometry_calib';...%performs geometric calibration from a set of reference points
62    'geometry_calib.fig';...%interface for geometry_calib
63    'get_field';...% choose and plot a field from a Netcdf file
64    'get_field.fig';...%interface for get_field
[380]65    'get_file_series';...% determine the list of file names and file indices for functions called by 'series'.
66    'get_file_type';...% determine info about a file (image, multimage, civdata,...) .
[357]67    'hist_update';...%  update of a current global histogram by inclusion of a new field
68    'imadoc2struct';...%convert the image documentation file ImaDoc into a Matlab structure
69    'keyboard_callback';... % function activated when a key is pressed on the keyboard
70    'ListDir';... scan the structure of the directory tree (for dataview.m)
71    'mouse_down';% function activated when the mouse button is pressed on a figure (callback for 'WindowButtonDownFcn')
72    'mouse_motion';...% permanently called by mouse motion over a figure (callback for 'WindowButtonMotionFcn')
73    'mouse_up';... % function to be activated when the mouse button is released (callback for 'WindowButtonUpFcn')
74    'msgbox_uvmat';... associated with GUI msgbox_uvmat.fig to display message boxes, for error, warning or input calls
75    'msgbox_uvmat.fig';...
76    'nc2struct';...% transform a netcdf file in a corresponding matlab structure
77    'num2stra';...% transform number to the corresponding character string depending on the nomenclature
78    'open_uvmat';...% open with uvmat the  field selected in the list of 'civ/status' or 'series/check_data_files'
79    'phys_XYZ';...% transform coordiantes from pixels to phys
80    'px_XYZ';...% transform coordiantes from phys to pixels
81    'plot_field';...%displays a vector field and/or scalar or images
82    'plot_object';...%draws a projection object (points, line, plane...)
83    'proj_field';...%project a field on a projection object (plane, line,...)
84    'read_civxdata';...reads civx data from netcdf files
85    'read_civdata';... reads new civ data from netcdf files
[498]86    'read_field';...% read the fields from files in different formats (netcdf files, images, video)
[548]87%     'read_get_field';... read the list of selected variables from the GUI get_field (TODO: use read_GUI)
[497]88    'read_GUI';... %read a GUI and provide the data as a Matlab structure
[498]89    'read_image';...%read images or video objects
[477]90    'read_multimadoc';... %read a set of Imadoc files and compare their timing of different file series
[357]91    'read_xls';...%read excel files containing the list of the experiments
92    'reinit';...% suppress the personal parameter file 'uvmat_perso.mat'
93    'rotate_points';...%'rotate_points': associated with GUI rotate_points.fig to introduce (2D) rotation parameters
94    'rotate_points.fig';...
95    'RUN_STLIN';...% combine 2 displacement fields for stereo PIV
96    'series';...% master function for analysis field series, with interface 'series.fig'
97    'series.fig';...% interface for 'series'
98    'set_col_vec';...% sets the color code for vectors depending on a scalar and input parameters (used for plot_field)
[588]99    'set_field_list';...% set the menu of input fields
[357]100    'set_grid';...% creates a grid for PIV
101    'set_grid.fig';...% interface for set_grid
102    'set_object.m';...%  edit a projection object
103    'set_object.fig';...% interface for set_object
[581]104    'set_subdomains';...% sort a set of points defined by scattered coordinates in subdomains, as needed for tps interpolation
[357]105    'stra2num';...% transform letters (a, b, A, B,) or numerical strings ('1','2'..) to the corresponding numbers
106    'sub_field';...% combine the two input fields,
107    'struct2nc';...% %write fields in netcdf files
108    'struct2xml';... transform a matlab structure to a xml tree.
109    'tps_coeff';...% calculate the thin plate spline (tps) coefficients
[581]110    'tps_coeff_field';...% calculate the thin plate spline (tps) coefficients with subdomains for a field structure
[357]111    'tps_eval';... %calculate the thin plate spline (tps) interpolation at a set of points
112    'tps_eval_dxy';...% calculate the derivatives of thin plate spline (tps) interpolation at a set of points (limited to the 2D case)
113    'translate_points';...% associated with GUI translate_points.fig to display translation parameters
114    'translate_points.fig';...
115    'update_imadoc';...  %update the ImaDoc xml file
116    'update_waitbar';... update the waitbar display, used for ACTION functions in the GUI 'series'
117    'uvmat';...% master function for file scanning and visualisation of 2D fields
118    'uvmat.fig';...  %interface for uvmat
119    'view_field.m';...% function for visualisation of projected fields'
120    'view_field.fig';...%GUI for view_field
121    'write_plot_param';...%update plotting parameters after plot, TODO: change into a general function: fill_GUI
122    'xml2struct';...% read an xml file as a Matlab structure, converts numeric character strings into numbers
123    };
124dir_fct=which('uvmat');% path to uvmat
[497]125pathuvmat=fileparts(dir_fct);
[357]126
127%% add the uvmat path to matlab if needed
128if isempty(regexp(path,[pathuvmat '(:|\>)'],'once'))
129    addpath(pathuvmat);
130end
131
132
133%% loop on the list of functions in the uvmat package
134icount=0;
135datnum=zeros(1,length(list_fct));
136for i=1:length(list_fct)
137    dir_fct=which(list_fct{i});% path to fct
138    if isempty(dir_fct)
139        icount=icount+1;
[497]140        checkmsg{icount}=[list_fct{i} ' not found'];% test for function not found
[357]141    else
[497]142        pth=fileparts(dir_fct);
143        if ~isequal(pathuvmat,pth) && ~isequal(fullfile(pathuvmat,'private'),pth)
[357]144            icount=icount+1;
[497]145            checkmsg{icount}=[dir_fct ' overrides the package UVMAT'];% bad path for the function
[357]146        end
147        datfile=dir(dir_fct);
148        if isfield(datfile,'datenum')
149            datnum(i)= datfile.datenum;
150        end
151    end
152end
153date_str=datestr(max(datnum));
[497]154
155%% check svn status
[479]156[status,result]=system('svn --help');
157if status==0
158    svn_info.rep_rev=0;svn_info.cur_rev=0;
159    [tild,result]=system(['svn info ' dir_fct]);
160    t=regexp(result,'R.vision\s*:\s*(?<rev>\d+)','names');
161    if ~isempty(t)
[475]162        svn_info.cur_rev=str2double(t.rev);
[357]163    end
[497]164    [tild,result]=system(['svn info -r ''HEAD'' '  pathuvmat]);
[479]165    t=regexp(result,'R.vision\s*:\s*(?<rev>\d+)','names');
166    if ~isempty(t)
[497]167        svn_info.rep_rev=str2double(t.rev);
[479]168    end
[497]169    [tild,result]=system(['svn status '  pathuvmat]);
[479]170    svn_info.status=result;
[497]171    checkmsg =[checkmsg {['SVN revision : ' num2str(svn_info.cur_rev)]}];
[479]172    if svn_info.rep_rev>svn_info.cur_rev
[497]173        checkmsg =[checkmsg ...
[479]174            {['Repository now at revision ' num2str(svn_info.rep_rev) '. Please type svn update in uvmat folder']}];
175    end
176    modifications=regexp(svn_info.status,'M\s[^(\n|\>)]+','match');
177    if ~isempty(modifications)
[497]178        for ilist=1:numel(modifications)
179            [tild,FileName,FileExt]=fileparts(modifications{ilist});
180            checkmsg=[checkmsg {[FileName FileExt ' modified']}];
181        end
[479]182    end
183else
[497]184    checkmsg=[checkmsg {'SVN not available'}];
[479]185end
[497]186checkmsg=checkmsg';
[357]187
[505]188%% check dates of compilation
189currentdir=pwd;
190cd(pathuvmat)
191list_compile=dir('*.sh');
192for ilist=1:numel(list_compile)
193    mfile=regexprep(list_compile(ilist).name,'.sh$','.m');
194    datfile=dir(mfile);
195    if isfield(datfile,'datenum') && datfile.datenum>list_compile(ilist).datenum
196        checkmsg=[checkmsg;{[list_compile(ilist).name ' needs to be updated by compile_functions']}];
197    end
198end
199
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