Changeset 59

Timestamp:

Aug 11, 2010, 4:14:21 PM (10 years ago)

Author:

j@…

bzr:base-revision:

j@dannynavarro.net-20100811094810-08o9ti8sq8zm2bfs

bzr:committer:

Danny Navarro <j@dannynavarro.net>

bzr:file-ids:

mzcms/models.py models.py-20100730084238-fjjwldiefr0w07zv-4
mzcms/parsers.py parsers.py-20100806092910-g1sxvv1o5b9umkof-1

bzr:mapping-version:

v4

bzr:repository-uuid:

724254b2-fbe6-419d-9466-c04ef4c9d29d

bzr:revision-id:

j@dannynavarro.net-20100811095935-ob1ok26lpa8bi3ul

bzr:revno:

59

bzr:revprop:branch-nick:

trunk

bzr:root:

trunk

bzr:timestamp:

2010-08-11 11:59:35.641000032 +0200

bzr:user-agent:

bzr2.1.2+bzr-svn1.0.3

svn:original-date:

2010-08-11T09:59:35.641000Z

Message:

Set for protein peptide references instead of list to avoid redundant peptide references

Location:

trunk/mzcms

Files:

• models.py (modified) (1 diff)
• parsers.py (modified) (1 diff)

trunk/mzcms/models.py

@@ -22 +22 @@
             if prot_id in self:
                 # XXX: Test this is done correctly
-                self[prot_id].pep_refs.extend(prot.pep_refs)
+                self[prot_id].pep_refs.update(prot.pep_refs)
             else:
                 self[prot_id] = prot

trunk/mzcms/parsers.py

@@ -210 +210 @@
                                 native_id=prot_id,
                                 sequence="TBI",
-                                pep_refs=[peptide]
+                                pep_refs=set([peptide])
                                 )
                         proteins[prot_id] = protein
                     else:
-                        if peptide not in proteins[prot_id].pep_refs:
-                            proteins[prot_id].pep_refs.append(peptide)
+                        proteins[prot_id].pep_refs.add(peptide)
         return proteins, peptides, spectra, psms