[MOBY-guts] biomoby commit
Yan Wong
yanwong at pub.open-bio.org
Mon Feb 7 14:12:35 UTC 2005
yanwong
Mon Feb 7 09:23:33 EST 2005
Update of /home/repository/moby/moby-live/Python/bioMoby/ontology
In directory pub.open-bio.org:/tmp/cvs-serv18508
Modified Files:
Alignment.py AlleleAssociation.py Allele_freq.py
AminoAcidSequence.py B64_Encoded_PNG.py
B64_Encoded_Postscript.py B64_encoded_PDB.py
B64_encoded_gif.py B64_encoded_jpeg.py BLASTText.py
BasicGFFSequenceFeature.py ClustalAlnFormattedText.py
ClustalMsfFormattedText.py CommentedAASequence.py
CommentedDNASequence.py CommentedRNASequence.py DNASequence.py
DNASequenceWithGFFFeatures.py DateTime.py Decypher_Text.py
Edge.py EmblFlatfile.py FASTA.py FASTA_AA.py FASTA_NA.py
FASTA_NA_multi.py FASTA_Text.py GFF.py GFF1.py GFF2.py
GFF2_5.py GFF3.py GO_Term.py GenbankFlatfile.py
Gene_Expression_data.py GenericSequence.py GeneticElement.py
Genotype.py Germplasm_Details.py Germplasm_List.py
Global_Keyword.py HBond_Pair.py HFormatText.py
Haplotyping_Study_obj.py ICIS_Query.py ICIS_Query2.py
ICIS_Query3.py IntAct_XML.py Interaction.py
InteractionMethod.py Interaction_partner.py Interactor.py
MEME_Text.py MGIS_ACCESSION.py MMP_Locus.py MO_Term_Test.py
MSF.py MmCIFText.py Multi_key_value_pair.py
MyTestingDataType_11024145298313.py MyTree.py
NCBI_BLAST_Text.py NCBI_Blast_XML.py NCBI_Blast_XML_Gif.py
NCBI_Blast_XML_Gif_Map.py NCBI_MEME_Text.py
NucleotideSequence.py PDBFormattedText.py PDBText.py PDGJOB.py
PHDText.py PMUTText.py PSeaTextFormatted.py
PhenotypeDescription.py PubMedMEDLINE.py RNASequence.py
SINGER_ACCESSION.py Sample.py SchematikonMotifID.py
SchematikonMotifSupport.py SchematikonSegmentAttributes.py
SchematikonSegmentID.py SchematikonStructureAnnotation.py
SchematikonVorocodeName.py Scored_acronym_string.py
SimpleAnnotatedGIFImage.py SimpleAnnotatedJPEGImage.py
Simple_key_value_pair.py Snp_allele.py Snp_genotype.py
Study.py TEST.py TargetP_result.py Testout.py TextBase64.py
TextFormatted.py TextHtml.py TextPlain.py TextUuencoded.py
TextXml.py Text_plain.py Trait_Details.py Tree.py
TropGENE_ACCESSION.py TropGENE_Diversity_Matrix.py
TropGENE_LOCUS.py VirtualSequence.py WU_BLAST_Text.py
Wildcard_Query.py
Log Message:
moby-live/Python/bioMoby/ontology Alignment.py,1.1,1.2 AlleleAssociation.py,1.5,1.6 Allele_freq.py,1.5,1.6 AminoAcidSequence.py,1.5,1.6 B64_Encoded_PNG.py,1.5,1.6 B64_Encoded_Postscript.py,1.5,1.6 B64_encoded_PDB.py,1.5,1.6 B64_encoded_gif.py,1.5,1.6 B64_encoded_jpeg.py,1.5,1.6 BLASTText.py,1.5,1.6 BasicGFFSequenceFeature.py,1.5,1.6 ClustalAlnFormattedText.py,1.5,1.6 ClustalMsfFormattedText.py,1.5,1.6 CommentedAASequence.py,1.5,1.6 CommentedDNASequence.py,1.5,1.6 CommentedRNASequence.py,1.5,1.6 DNASequence.py,1.5,1.6 DNASequenceWithGFFFeatures.py,1.5,1.6 DateTime.py,1.5,1.6 Decypher_Text.py,1.5,1.6 Edge.py,1.5,1.6 EmblFlatfile.py,1.5,1.6 FASTA.py,1.5,1.6 FASTA_AA.py,1.5,1.6 FASTA_NA.py,1.5,1.6 FASTA_NA_multi.py,1.1,1.2 FASTA_Text.py,1.5,1.6 GFF.py,1.5,1.6 GFF1.py,1.5,1.6 GFF2.py,1.5,1.6 GFF2_5.py,1.5,1.6 GFF3.py,1.5,1.6 GO_Term.py,1.5,1.6 GenbankFlatfile.py,1.5,1.6 Gene_Expression_data.py,1.1,1.2 GenericSequence.py,1.5,1.6 GeneticElement.py,1.5,1.6 Genotype.py,1.5,1.6 Germpl!
asm_Details.py,1.5,1.6 Germplasm_List.py,1.5,1.6 Global_Keyword.py,1.5,1.6 HBond_Pair.py,1.5,1.6 HFormatText.py,1.5,1.6 Haplotyping_Study_obj.py,1.5,1.6 ICIS_Query.py,1.5,1.6 ICIS_Query2.py,1.5,1.6 ICIS_Query3.py,1.5,1.6 IntAct_XML.py,1.5,1.6 Interaction.py,1.5,1.6 InteractionMethod.py,1.5,1.6 Interaction_partner.py,1.5,1.6 Interactor.py,1.5,1.6 MEME_Text.py,1.5,1.6 MGIS_ACCESSION.py,1.5,1.6 MMP_Locus.py,1.5,1.6 MO_Term_Test.py,1.5,1.6 MSF.py,1.1,1.2 MmCIFText.py,1.5,1.6 Multi_key_value_pair.py,1.5,1.6 MyTestingDataType_11024145298313.py,1.5,1.6 MyTree.py,1.5,1.6 NCBI_BLAST_Text.py,1.5,1.6 NCBI_Blast_XML.py,1.5,1.6 NCBI_Blast_XML_Gif.py,1.5,1.6 NCBI_Blast_XML_Gif_Map.py,1.5,1.6 NCBI_MEME_Text.py,1.5,1.6 NucleotideSequence.py,1.5,1.6 PDBFormattedText.py,1.5,1.6 PDBText.py,1.5,1.6 PDGJOB.py,1.5,1.6 PHDText.py,1.5,1.6 PMUTText.py,1.5,1.6 PSeaTextFormatted.py,1.5,1.6 PhenotypeDescription.py,1.5,1.6 PubMedMEDLINE.py,1.5,1.6 RNASequence.py,1.5,1.6 SINGER_ACCESSION.py,1.5,1.6 Sampl!
e.py,1.5,1.6 SchematikonMotifID.py,1.5,1.6 SchematikonMotifSu!
pport.py,1.5,1.6 SchematikonSegmentAttributes.py,1.5,1.6 SchematikonSegmentID.py,1.5,1.6 SchematikonStructureAnnotation.py,1.5,1.6 SchematikonVorocodeName.py,1.5,1.6 Scored_acronym_string.py,1.5,1.6 SimpleAnnotatedGIFImage.py,1.5,1.6 SimpleAnnotatedJPEGImage.py,1.5,1.6 Simple_key_value_pair.py,1.5,1.6 Snp_allele.py,1.5,1.6 Snp_genotype.py,1.5,1.6 Study.py,1.5,1.6 TEST.py,1.5,1.6 TargetP_result.py,1.5,1.6 Testout.py,1.5,1.6 TextBase64.py,1.5,1.6 TextFormatted.py,1.5,1.6 TextHtml.py,1.5,1.6 TextPlain.py,1.5,1.6 TextUuencoded.py,1.5,1.6 TextXml.py,1.5,1.6 Text_plain.py,1.5,1.6 Trait_Details.py,1.5,1.6 Tree.py,1.5,1.6 TropGENE_ACCESSION.py,1.5,1.6 TropGENE_Diversity_Matrix.py,1.5,1.6 TropGENE_LOCUS.py,1.5,1.6 VirtualSequence.py,1.5,1.6 WU_BLAST_Text.py,1.5,1.6 Wildcard_Query.py,1.5,1.6
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Alignment.py,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Alignment.py 2005/02/02 15:18:06 1.1
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Alignment.py 2005/02/07 14:23:32 1.2
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/AlleleAssociation.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/AlleleAssociation.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/AlleleAssociation.py 2005/02/07 14:23:32 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="snp" or elt.getAttribute("moby:articleName")=="snp"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Allele_freq.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Allele_freq.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Allele_freq.py 2005/02/07 14:23:32 1.6
@@ -46,7 +46,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Object" or elt.nodeName=="moby:Object") and (elt.getAttribute("articleName")=="panel_lsid" or elt.getAttribute("moby:articleName")=="panel_lsid"):
self.Panel_lsid=MobyObject()
self.Panel_lsid.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/AminoAcidSequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/AminoAcidSequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/AminoAcidSequence.py 2005/02/07 14:23:32 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_Encoded_PNG.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_Encoded_PNG.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_Encoded_PNG.py 2005/02/07 14:23:32 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_Encoded_Postscript.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_Encoded_Postscript.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_Encoded_Postscript.py 2005/02/07 14:23:32 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_PDB.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_PDB.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_PDB.py 2005/02/07 14:23:32 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_gif.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_gif.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_gif.py 2005/02/07 14:23:32 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_jpeg.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_jpeg.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/B64_encoded_jpeg.py 2005/02/07 14:23:32 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/BLASTText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/BLASTText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/BLASTText.py 2005/02/07 14:23:32 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/BasicGFFSequenceFeature.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/BasicGFFSequenceFeature.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/BasicGFFSequenceFeature.py 2005/02/07 14:23:32 1.6
@@ -62,7 +62,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="reference" or elt.getAttribute("moby:articleName")=="reference"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/ClustalAlnFormattedText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/ClustalAlnFormattedText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/ClustalAlnFormattedText.py 2005/02/07 14:23:32 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/ClustalMsfFormattedText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/ClustalMsfFormattedText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/ClustalMsfFormattedText.py 2005/02/07 14:23:32 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedAASequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedAASequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedAASequence.py 2005/02/07 14:23:32 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedDNASequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedDNASequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedDNASequence.py 2005/02/07 14:23:32 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedRNASequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedRNASequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/CommentedRNASequence.py 2005/02/07 14:23:32 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/DNASequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/DNASequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/DNASequence.py 2005/02/07 14:23:32 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/DNASequenceWithGFFFeatures.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/DNASequenceWithGFFFeatures.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/DNASequenceWithGFFFeatures.py 2005/02/07 14:23:33 1.6
@@ -54,7 +54,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/DateTime.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/DateTime.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/DateTime.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Decypher_Text.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Decypher_Text.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Decypher_Text.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Edge.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Edge.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Edge.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="partner" or elt.getAttribute("moby:articleName")=="partner"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/EmblFlatfile.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/EmblFlatfile.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/EmblFlatfile.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_AA.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_AA.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_AA.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_NA.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_NA.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_NA.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_NA_multi.py,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_NA_multi.py 2005/02/02 15:20:55 1.1
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_NA_multi.py 2005/02/07 14:23:33 1.2
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_Text.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_Text.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/FASTA_Text.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF1.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF1.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF1.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF2.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF2.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF2.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF2_5.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF2_5.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF2_5.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF3.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF3.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GFF3.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GO_Term.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GO_Term.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GO_Term.py 2005/02/07 14:23:33 1.6
@@ -50,7 +50,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="Term" or elt.getAttribute("moby:articleName")=="Term"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GenbankFlatfile.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GenbankFlatfile.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GenbankFlatfile.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Gene_Expression_data.py,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Gene_Expression_data.py 2005/02/02 15:20:55 1.1
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Gene_Expression_data.py 2005/02/07 14:23:33 1.2
@@ -49,7 +49,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="Expression data" or elt.getAttribute("moby:articleName")=="Expression data"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GenericSequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GenericSequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GenericSequence.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/GeneticElement.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/GeneticElement.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/GeneticElement.py 2005/02/07 14:23:33 1.6
@@ -49,7 +49,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="GeneticElement" or elt.getAttribute("moby:articleName")=="GeneticElement"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Genotype.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Genotype.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Genotype.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="snp" or elt.getAttribute("moby:articleName")=="snp"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Germplasm_Details.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Germplasm_Details.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Germplasm_Details.py 2005/02/07 14:23:33 1.6
@@ -57,7 +57,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="date" or elt.getAttribute("moby:articleName")=="date"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Germplasm_List.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Germplasm_List.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Germplasm_List.py 2005/02/07 14:23:33 1.6
@@ -57,7 +57,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="germplasm_id" or elt.getAttribute("moby:articleName")=="germplasm_id"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Global_Keyword.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Global_Keyword.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Global_Keyword.py 2005/02/07 14:23:33 1.6
@@ -47,4 +47,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/HBond_Pair.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/HBond_Pair.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/HBond_Pair.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="A" or elt.getAttribute("moby:articleName")=="A"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/HFormatText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/HFormatText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/HFormatText.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Haplotyping_Study_obj.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Haplotyping_Study_obj.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Haplotyping_Study_obj.py 2005/02/07 14:23:33 1.6
@@ -47,4 +47,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="end_row" or elt.getAttribute("moby:articleName")=="end_row"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query2.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query2.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query2.py 2005/02/07 14:23:33 1.6
@@ -54,7 +54,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="search_text1" or elt.getAttribute("moby:articleName")=="search_text1"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query3.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query3.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/ICIS_Query3.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="search_text1" or elt.getAttribute("moby:articleName")=="search_text1"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/IntAct_XML.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/IntAct_XML.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/IntAct_XML.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Interaction.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Interaction.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Interaction.py 2005/02/07 14:23:33 1.6
@@ -53,7 +53,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="result" or elt.getAttribute("moby:articleName")=="result"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/InteractionMethod.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/InteractionMethod.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/InteractionMethod.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="shortlabel" or elt.getAttribute("moby:articleName")=="shortlabel"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Interaction_partner.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Interaction_partner.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Interaction_partner.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="direction" or elt.getAttribute("moby:articleName")=="direction"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Interactor.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Interactor.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Interactor.py 2005/02/07 14:23:33 1.6
@@ -49,7 +49,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="role" or elt.getAttribute("moby:articleName")=="role"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/MEME_Text.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/MEME_Text.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/MEME_Text.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/MGIS_ACCESSION.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/MGIS_ACCESSION.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/MGIS_ACCESSION.py 2005/02/07 14:23:33 1.6
@@ -68,7 +68,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="Biotic_stress_Yellowsig" or elt.getAttribute("moby:articleName")=="Biotic_stress_Yellowsig"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/MMP_Locus.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/MMP_Locus.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/MMP_Locus.py 2005/02/07 14:23:33 1.6
@@ -47,4 +47,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/MO_Term_Test.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/MO_Term_Test.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/MO_Term_Test.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="class_name" or elt.getAttribute("moby:articleName")=="class_name"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/MSF.py,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -r1.1 -r1.2
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/MSF.py 2005/02/02 15:08:34 1.1
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/MSF.py 2005/02/07 14:23:33 1.2
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/MmCIFText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/MmCIFText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/MmCIFText.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Multi_key_value_pair.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Multi_key_value_pair.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Multi_key_value_pair.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="key" or elt.getAttribute("moby:articleName")=="key"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/MyTestingDataType_11024145298313.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/MyTestingDataType_11024145298313.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/MyTestingDataType_11024145298313.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/MyTree.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/MyTree.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/MyTree.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_BLAST_Text.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_BLAST_Text.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_BLAST_Text.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML_Gif.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML_Gif.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML_Gif.py 2005/02/07 14:23:33 1.6
@@ -50,7 +50,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="b64_encoded_gif" or elt.nodeName=="moby:b64_encoded_gif") and (elt.getAttribute("articleName")=="hitGraph" or elt.getAttribute("moby:articleName")=="hitGraph"):
self.HitGraph=MobyB64_encoded_gif()
self.HitGraph.fromMoby(elt)
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML_Gif_Map.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML_Gif_Map.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_Blast_XML_Gif_Map.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="b64_encoded_gif" or elt.nodeName=="moby:b64_encoded_gif") and (elt.getAttribute("articleName")=="hitGraph" or elt.getAttribute("moby:articleName")=="hitGraph"):
self.HitGraph=MobyB64_encoded_gif()
self.HitGraph.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_MEME_Text.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_MEME_Text.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/NCBI_MEME_Text.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/NucleotideSequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/NucleotideSequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/NucleotideSequence.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/PDBFormattedText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/PDBFormattedText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/PDBFormattedText.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/PDBText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/PDBText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/PDBText.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/PDGJOB.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/PDGJOB.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/PDGJOB.py 2005/02/07 14:23:33 1.6
@@ -54,7 +54,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="answerService" or elt.getAttribute("moby:articleName")=="answerService"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/PHDText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/PHDText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/PHDText.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/PMUTText.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/PMUTText.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/PMUTText.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/PSeaTextFormatted.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/PSeaTextFormatted.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/PSeaTextFormatted.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/PhenotypeDescription.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/PhenotypeDescription.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/PhenotypeDescription.py 2005/02/07 14:23:33 1.6
@@ -49,7 +49,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="Phenotype" or elt.getAttribute("moby:articleName")=="Phenotype"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/PubMedMEDLINE.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/PubMedMEDLINE.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/PubMedMEDLINE.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/RNASequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/RNASequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/RNASequence.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SINGER_ACCESSION.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SINGER_ACCESSION.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SINGER_ACCESSION.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="ACCNO" or elt.getAttribute("moby:articleName")=="ACCNO"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Sample.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Sample.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Sample.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="code" or elt.getAttribute("moby:articleName")=="code"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonMotifID.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonMotifID.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonMotifID.py 2005/02/07 14:23:33 1.6
@@ -49,7 +49,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="ID" or elt.getAttribute("moby:articleName")=="ID"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonMotifSupport.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonMotifSupport.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonMotifSupport.py 2005/02/07 14:23:33 1.6
@@ -50,7 +50,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="UniqueSupport" or elt.getAttribute("moby:articleName")=="UniqueSupport"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonSegmentAttributes.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonSegmentAttributes.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonSegmentAttributes.py 2005/02/07 14:23:33 1.6
@@ -54,7 +54,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonSegmentID.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonSegmentID.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonSegmentID.py 2005/02/07 14:23:33 1.6
@@ -49,7 +49,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="ID" or elt.getAttribute("moby:articleName")=="ID"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonStructureAnnotation.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonStructureAnnotation.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonStructureAnnotation.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="PROMOTIF gamma-turn" or elt.getAttribute("moby:articleName")=="PROMOTIF gamma-turn"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonVorocodeName.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonVorocodeName.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SchematikonVorocodeName.py 2005/02/07 14:23:33 1.6
@@ -49,7 +49,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="VorocodeName" or elt.getAttribute("moby:articleName")=="VorocodeName"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Scored_acronym_string.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Scored_acronym_string.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Scored_acronym_string.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Float" or elt.nodeName=="moby:Float") and (elt.getAttribute("articleName")=="score" or elt.getAttribute("moby:articleName")=="score"):
t=MobyFloat()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SimpleAnnotatedGIFImage.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SimpleAnnotatedGIFImage.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SimpleAnnotatedGIFImage.py 2005/02/07 14:23:33 1.6
@@ -50,7 +50,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="Description" or elt.getAttribute("moby:articleName")=="Description"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/SimpleAnnotatedJPEGImage.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/SimpleAnnotatedJPEGImage.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/SimpleAnnotatedJPEGImage.py 2005/02/07 14:23:33 1.6
@@ -51,7 +51,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="Description" or elt.getAttribute("moby:articleName")=="Description"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Simple_key_value_pair.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Simple_key_value_pair.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Simple_key_value_pair.py 2005/02/07 14:23:33 1.6
@@ -50,7 +50,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="value" or elt.getAttribute("moby:articleName")=="value"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Snp_allele.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Snp_allele.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Snp_allele.py 2005/02/07 14:23:33 1.6
@@ -39,7 +39,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="DNASequence" or elt.nodeName=="moby:DNASequence") and (elt.getAttribute("articleName")=="snp_allele" or elt.getAttribute("moby:articleName")=="snp_allele"):
self.Snp_allele=MobyDNASequence()
self.Snp_allele.fromMoby(elt)
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Snp_genotype.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Snp_genotype.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Snp_genotype.py 2005/02/07 14:23:33 1.6
@@ -40,7 +40,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="snp_allele" or elt.nodeName=="moby:snp_allele") and (elt.getAttribute("articleName")=="allele1" or elt.getAttribute("moby:articleName")=="allele1"):
self.Allele1=MobySnp_allele()
self.Allele1.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Study.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Study.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Study.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="study_name" or elt.getAttribute("moby:articleName")=="study_name"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TEST.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TEST.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TEST.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TargetP_result.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TargetP_result.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TargetP_result.py 2005/02/07 14:23:33 1.6
@@ -54,7 +54,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Float" or elt.nodeName=="moby:Float") and (elt.getAttribute("articleName")=="o_score" or elt.getAttribute("moby:articleName")=="o_score"):
t=MobyFloat()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Testout.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Testout.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Testout.py 2005/02/07 14:23:33 1.6
@@ -53,7 +53,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="gid" or elt.getAttribute("moby:articleName")=="gid"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TextBase64.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TextBase64.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TextBase64.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TextFormatted.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TextFormatted.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TextFormatted.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TextHtml.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TextHtml.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TextHtml.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TextPlain.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TextPlain.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TextPlain.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TextUuencoded.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TextUuencoded.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TextUuencoded.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TextXml.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TextXml.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TextXml.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Text_plain.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Text_plain.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Text_plain.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Trait_Details.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Trait_Details.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Trait_Details.py 2005/02/07 14:23:33 1.6
@@ -54,7 +54,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="String" or elt.nodeName=="moby:String") and (elt.getAttribute("articleName")=="trait_desc" or elt.getAttribute("moby:articleName")=="trait_desc"):
t=MobyString()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Tree.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Tree.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Tree.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_ACCESSION.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_ACCESSION.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_ACCESSION.py 2005/02/07 14:23:33 1.6
@@ -68,7 +68,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="TropGENE_LOCUS" or elt.nodeName=="moby:TropGENE_LOCUS") and (elt.getAttribute("articleName")=="RFLP" or elt.getAttribute("moby:articleName")=="RFLP"):
self.RFLP=MobyTropGENE_LOCUS()
self.RFLP.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_Diversity_Matrix.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_Diversity_Matrix.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_Diversity_Matrix.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_LOCUS.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_LOCUS.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/TropGENE_LOCUS.py 2005/02/07 14:23:33 1.6
@@ -47,4 +47,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/VirtualSequence.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/VirtualSequence.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/VirtualSequence.py 2005/02/07 14:23:33 1.6
@@ -49,7 +49,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="Length" or elt.getAttribute("moby:articleName")=="Length"):
t=MobyInteger()
t.fromMoby(elt)
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/WU_BLAST_Text.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/WU_BLAST_Text.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/WU_BLAST_Text.py 2005/02/07 14:23:33 1.6
@@ -48,4 +48,5 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
\ No newline at end of file
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
\ No newline at end of file
===================================================================
RCS file: /home/repository/moby/moby-live/Python/bioMoby/ontology/Wildcard_Query.py,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Python/bioMoby/ontology/Wildcard_Query.py 2005/02/01 14:20:44 1.5
+++ /home/repository/moby/moby-live/Python/bioMoby/ontology/Wildcard_Query.py 2005/02/07 14:23:33 1.6
@@ -52,7 +52,8 @@
if elt.nodeName=="CrossReference" or elt.nodeName=="moby:CrossReference":
self.__cross__=[]
for ref in elt.childNodes:
- self.__cross__.append(um.loads(ref))
+ if ref.nodeType==ref.ELEMENT_NODE:
+ self.__cross__.append(um.loadn(ref))
if elt.nodeType==elt.ELEMENT_NODE and (elt.nodeName=="Integer" or elt.nodeName=="moby:Integer") and (elt.getAttribute("articleName")=="end_row" or elt.getAttribute("moby:articleName")=="end_row"):
t=MobyInteger()
t.fromMoby(elt)
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