GBparser.py:

- Added misc_RNA, ncRNA, rRNA, tRNA and tmRNA as valid RNA fields.

GenRecord.py:
- Enabled the transcription of non-coding RNA.

Web.py:
- Increased the version number and release date.



git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@102 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

src/Modules/GBparser.py

@@ -440,8 +440,8 @@ class GBparser() :
             if i.qualifiers :
                 if i.type == "source" :
                     if i.qualifiers.has_key("mol_type") :
-                        if i.qualifiers["mol_type"][0] == "mRNA" or \
-                           i.qualifiers["mol_type"][0] == "transcribed RNA" :
+                        if i.qualifiers["mol_type"][0] in ["mRNA", \
+                           "transcribed RNA"] :
                             record.molType = 'n'
                         else :
                             record.molType = 'g'
@@ -470,7 +470,8 @@ class GBparser() :
                             geneDict[geneName] = tempGene(geneName)
                     #if
 
-                    if i.type == "mRNA" :
+                    if i.type in ["mRNA", "misc_RNA", "ncRNA", "rRNA", "tRNA", 
+                       "tmRNA"] :
                         geneDict[geneName].rnaList.append(i)
                     if i.type == "CDS" :
                         geneDict[geneName].cdsList.append(i)

src/Modules/GenRecord.py

@@ -469,6 +469,7 @@ class GenRecord() :
                     if j.mRNA.positionList :
                         j.CM = Crossmap.Crossmap(j.mRNA.positionList,
                                                  [], i.orientation)
+                        j.transcribe = True
                     else :
                         j.description = '?'
                 #else

src/Modules/Web.py

@@ -42,9 +42,9 @@ class Web() :
                 version ; Here the displayed version is defined.
         """
 
-        self.version = "2.0 β-2"
+        self.version = "2.0 β-3"
         self.nomenclatureVersion = "2.0"
-        self.releaseDate = "22 Sep 2010"
+        self.releaseDate = "11 Nov 2010"
 
         C = Config.Config()
         self.email = C.Retriever.email