Skip to content

Commit 2b06bba

Browse files
edkerkedkerk
authored
Merge pull request #349 from SysBioChalmers/devel
RAVEN 2.5.1
2 parents f0ede3d + 92eded8 commit 2b06bba

File tree

8 files changed

+341
-307
lines changed

8 files changed

+341
-307
lines changed

‎doc/external/index.html

+1-1
Original file line numberDiff line numberDiff line change
@@ -24,7 +24,7 @@ <h2>Matlab files in this directory:</h2>
2424

2525
<h2>Subsequent directories:</h2>
2626
<ul style="list-style-image:url(../matlabicon.gif)">
27-
<li>MetaNetX</li><li><a href="kegg/index.html">kegg</a></li><li><a href="metacyc/index.html">metacyc</a></li></ul>
27+
<li><a href="kegg/index.html">kegg</a></li><li><a href="metacyc/index.html">metacyc</a></li></ul>
2828

2929
<hr><address>Generated by <strong><a href="http://www.artefact.tk/software/matlab/m2html/" title="Matlab Documentation in HTML">m2html</a></strong> &copy; 2005</address>
3030
</body>

‎doc/external/kegg/index.html

+1-1
Original file line numberDiff line numberDiff line change
@@ -23,7 +23,7 @@ <h2>Matlab files in this directory:</h2>
2323

2424
<h2>Other Matlab-specific files in this directory:</h2>
2525
<ul style="list-style-image:url(../../matlabicon.gif)">
26-
<li>keggGenes.mat</li><li>keggMets.mat</li><li>keggModel.mat</li><li>keggPhylDist.mat</li><li>keggRxns.mat</li></ul>
26+
<li>keggGenes.mat</li><li>keggMets.mat</li><li>keggPhylDist.mat</li><li>keggRxns.mat</li></ul>
2727

2828

2929
<hr><address>Generated by <strong><a href="http://www.artefact.tk/software/matlab/m2html/" title="Matlab Documentation in HTML">m2html</a></strong> &copy; 2005</address>

‎doc/io/writeYaml.html

+5-5
Original file line numberDiff line numberDiff line change
@@ -268,19 +268,19 @@ <h2><a name="_source"></a>SOURCE CODE <a href="#_top"><img alt="^" border="0" sr
268268
0210 <span class="keyword">elseif</span> strcmp(fieldName,<span class="string">'newMetMiriams'</span>)
269269
0211 index = str2double(regexprep(name,<span class="string">'^.+_'</span>,<span class="string">''</span>));
270270
0212 name = regexprep(name,<span class="string">'_\d+$'</span>,<span class="string">''</span>);
271-
0213 list = strsplit(model.newMetMiriams{pos,index},<span class="string">';'</span>);
271+
0213 list = strsplit(model.newMetMiriams{pos,index},<span class="string">'; '</span>);
272272
0214 <span class="keyword">elseif</span> strcmp(fieldName,<span class="string">'newRxnMiriams'</span>)
273273
0215 index = str2double(regexprep(name,<span class="string">'^.+_'</span>,<span class="string">''</span>));
274274
0216 name = regexprep(name,<span class="string">'_\d+$'</span>,<span class="string">''</span>);
275-
0217 list = strsplit(model.newRxnMiriams{pos,index},<span class="string">';'</span>);
275+
0217 list = strsplit(model.newRxnMiriams{pos,index},<span class="string">'; '</span>);
276276
0218 <span class="keyword">elseif</span> strcmp(fieldName,<span class="string">'newGeneMiriams'</span>)
277277
0219 index = str2double(regexprep(name,<span class="string">'^.+_'</span>,<span class="string">''</span>));
278278
0220 name = regexprep(name,<span class="string">'_\d+$'</span>,<span class="string">''</span>);
279-
0221 list = strsplit(model.newGeneMiriams{pos,index},<span class="string">';'</span>);
279+
0221 list = strsplit(model.newGeneMiriams{pos,index},<span class="string">'; '</span>);
280280
0222 <span class="keyword">elseif</span> strcmp(fieldName,<span class="string">'newCompMiriams'</span>)
281281
0223 index = str2double(regexprep(name,<span class="string">'^.+_'</span>,<span class="string">''</span>));
282282
0224 name = regexprep(name,<span class="string">'_\d+$'</span>,<span class="string">''</span>);
283-
0225 list = strsplit(model.newCompMiriams{pos,index},<span class="string">';'</span>);
283+
0225 list = strsplit(model.newCompMiriams{pos,index},<span class="string">'; '</span>);
284284
0226 <span class="keyword">else</span>
285285
0227 list = strrep(field{pos},<span class="string">' '</span>,<span class="string">''</span>); <span class="comment">%Exception for eccodes</span>
286286
0228 list = strsplit(list,<span class="string">';'</span>);
@@ -305,7 +305,7 @@ <h2><a name="_source"></a>SOURCE CODE <a href="#_top"><img alt="^" border="0" sr
305305
0247 <span class="comment">%All other fields:</span>
306306
0248 <span class="keyword">if</span> strcmp(type,<span class="string">'txt'</span>)
307307
0249 value = field{pos};
308-
0250 <span class="keyword">if</span> preserveQuotes
308+
0250 <span class="keyword">if</span> preserveQuotes &amp;&amp; ~isempty(value)
309309
0251 value = strcat(<span class="string">'&quot;'</span>,value,<span class="string">'&quot;'</span>);
310310
0252 <span class="keyword">end</span>
311311
0253 <span class="keyword">elseif</span> strcmp(type,<span class="string">'num'</span>)

‎doc/struct_conversion/extractMiriam.html

+3-3
Original file line numberDiff line numberDiff line change
@@ -156,18 +156,18 @@ <h2><a name="_source"></a>SOURCE CODE <a href="#_top"><img alt="^" border="0" sr
156156
0085 <span class="keyword">if</span> j==1
157157
0086 miriams{i,1}=strcat(miriamName,<span class="string">'/'</span>,tempMiriams{i,1});
158158
0087 <span class="keyword">else</span>
159-
0088 miriams{i,1}=strcat(miriams{i,1},<span class="string">';'</span>,miriamName,<span class="string">'/'</span>,tempMiriams{i,j});
159+
0088 miriams{i,1}=strcat(miriams{i,1},<span class="string">'; '</span>,miriamName,<span class="string">'/'</span>,tempMiriams{i,j});
160160
0089 <span class="keyword">end</span>
161161
0090 <span class="keyword">end</span>
162162
0091 <span class="keyword">end</span>
163163
0092
164164
0093 <span class="comment">%Ensure that cell positions without miriams are blank</span>
165165
0094 miriams=regexprep(miriams,strcat(miriamName,<span class="string">'/;'</span>),<span class="string">''</span>);
166166
0095 miriams=regexprep(miriams,strcat(<span class="string">'^'</span>,miriamName,<span class="string">'/$'</span>),<span class="string">''</span>);
167-
0096 miriams=regexprep(miriams,strcat(<span class="string">';'</span>,miriamName,<span class="string">'/$'</span>),<span class="string">''</span>);
167+
0096 miriams=regexprep(miriams,strcat(<span class="string">'; '</span>,miriamName,<span class="string">'/$'</span>),<span class="string">''</span>);
168168
0097
169169
0098 <span class="comment">%Delete middle names:</span>
170-
0099 miriams=regexprep(miriams,strcat(<span class="string">';'</span>,miriamName,<span class="string">'/'</span>),<span class="string">';'</span>);
170+
0099 miriams=regexprep(miriams,strcat(<span class="string">'; '</span>,miriamName,<span class="string">'/'</span>),<span class="string">'; '</span>);
171171
0100
172172
0101 <span class="keyword">end</span></pre></div>
173173
<hr><address>Generated by <strong><a href="http://www.artefact.tk/software/matlab/m2html/" title="Matlab Documentation in HTML">m2html</a></strong> &copy; 2005</address>

0 commit comments

Comments
 (0)