python.bio.devel (thread)

Numeric dependencies, PDBParser.py, Jonathan Hilmer
- Re: Numeric dependencies, PDBParser.py, Peter
coalescent tutorial text, Tiago Antao
Bio.WWW.ExPASy, Michiel De Hoon
- Re: Bio.WWW.ExPASy, Peter Cock
  - Re: Bio.WWW.ExPASy, Michiel De Hoon
[Bug 2412] New: NCBIXML. fails parsing with blast 2.2.15 in special cases (Karlin-Altschul), bugzilla-daemon
- [Bug 2412] NCBIXML. fails parsing with blast 2.2.15 in special cases (Karlin-Altschul), bugzilla-daemon
- [Bug 2412] NCBIXML. fails parsing with blast 2.2.15 in special cases (Karlin-Altschul), bugzilla-daemon
- [Bug 2412] NCBIXML. fails parsing with blast 2.2.15 in special cases (Karlin-Altschul), bugzilla-daemon
[Bug 2411] New: Slicing the DBSeq object (BioSQL's Seq object), bugzilla-daemon
- [Bug 2411] Element access and slicing of DBSeq object (BioSQL's Seq object), bugzilla-daemon
- [Bug 2411] Element access and slicing of DBSeq object (BioSQL's Seq object), bugzilla-daemon
- [Bug 2411] Element access and slicing of DBSeq object (BioSQL's Seq object), bugzilla-daemon
- [Bug 2411] Element access and slicing of DBSeq object (BioSQL's Seq object), bugzilla-daemon
[Bug 2381] translate and transcibe methods for the Seq object (in Bio.Seq), bugzilla-daemon
[Bug 2410] New: DBSeq & DBSeqRecord should subclass Seq & SeqRecord, bugzilla-daemon
- [Bug 2410] DBSeq & DBSeqRecord should subclass Seq & SeqRecord, bugzilla-daemon
[Bug 2408] New: GenBank records do not contain U's, bugzilla-daemon
- [Bug 2408] GenBank records do not contain U's, bugzilla-daemon
- [Bug 2408] GenBank records do not contain U's, bugzilla-daemon
[Bug 2405] New: BioSQL gives UserWarning: ... not recognised as database type: temporarily accepting key, bugzilla-daemon
- [Bug 2405] BioSQL gives UserWarning: ... not recognised as database type: temporarily accepting key, bugzilla-daemon
- [Bug 2405] BioSQL gives UserWarning: ... not recognised as database type: temporarily accepting key, bugzilla-daemon
- [Bug 2405] db_xref and UserWarning: XXX not recognised as database type: temporarily accepting key, bugzilla-daemon
BioSQL, Peter
- Re: BioSQL, Michiel De Hoon
  - Re: BioSQL, Peter
    - Re: BioSQL, Michiel De Hoon
    - Re: BioSQL, Peter
[Bug 1982] Patch to BioSQL/Loader.py, bugzilla-daemon
[Bug 1987] Alphabet.Gapped does not retain gap character, bugzilla-daemon
[Bug 19] implement dbsearch Registry, bugzilla-daemon
- [Bug 19] implement dbsearch Registry, bugzilla-daemon
- [Bug 19] implement dbsearch Registry, bugzilla-daemon
Accessing built-in data files, Tiago Antão
- Re: Accessing built-in data files, Peter
  - Re: Accessing built-in data files, Tiago Antão
    - Re: Accessing built-in data files, Peter
    - Re: Accessing built-in data files, Tiago Antão
    - Re: Accessing built-in data files, Peter
    - Re: Accessing built-in data files, Tiago Antão
    - Re: Accessing built-in data files, Sebastian Bassi
Next release (was re: bug 2993), Peter
- Re: Next release (was re: bug 2993), Michiel De Hoon
  - Re: Next release (was re: bug 2993), Tiago Antão
[Bug 2403] New: prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
- [Bug 2403] prosite parser can't handle new PROSITE/PRORULE format, bugzilla-daemon
Making mxTextTools an optional dependency in setup.py, Peter
- Re: Making mxTextTools an optional dependency insetup.py, Michiel De Hoon
[Bug 2363] Some python files not stored as plain text in CVS?, bugzilla-daemon
[Bug 2397] New: test_PopGen_FDist does not fail gracefully on Windows, bugzilla-daemon
- [Bug 2397] test_PopGen_FDist does not fail gracefully on Windows, bugzilla-daemon
[Bug 2396] New: BioSQL loader does not store sequence level annotations dict, bugzilla-daemon
- [Bug 2396] BioSQL loader does not store sequence level annotations dict, bugzilla-daemon
- [Bug 2396] BioSQL loader does not store sequence level annotations dict, bugzilla-daemon
[Bug 2386] Bio.Seq.Seq and MutableSeq count() method only works for single residues, bugzilla-daemon
[Bug 2380] Bio.Nexus is adding "?" and "-" to Bio.Data.IUPACData.ambiguous_dna_values, bugzilla-daemon
- [Bug 2380] Bio.Nexus is adding "?" and "-" to Bio.Data.IUPACData.ambiguous_dna_values, bugzilla-daemon
- [Bug 2380] Bio.Nexus is adding "?" and "-" to Bio.Data.IUPACData.ambiguous_dna_values, bugzilla-daemon
Re: Biopython SVN Transition, Peter
- Re: Biopython SVN Transition, Chris Lasher
  - Re: Biopython SVN Transition, Chris Lasher
uploading coalescent code, Tiago Antao
- Re: uploading coalescent code, Michiel De Hoon
  - Re: uploading coalescent code, Tiago Antão
    - Re: uploading coalescent code, Michiel De Hoon
Bio.WWW; database access, Michiel De Hoon
- Re: Bio.WWW; database access, Peter
  - Re: Bio.WWW; database access, Michiel De Hoon
    - Re: Bio.WWW; database access, Peter
    - Re: Bio.WWW; database access, Michiel De Hoon
    - Re: Bio.WWW; database access, Michiel De Hoon
    - Re: Bio.WWW; database access, Michiel De Hoon
[Bug 1921] BioSeqDatabase.load() method fails, bugzilla-daemon
- [Bug 1921] BioSeqDatabase.load() method fails, bugzilla-daemon
[Bug 2395] New: Need a commit in db.load (BioSQL with MySQL), bugzilla-daemon
- [Bug 2395] Need a commit in BioSQL with MySQL, bugzilla-daemon
- [Bug 2395] Need a commit in BioSQL with MySQL, bugzilla-daemon
- [Bug 2395] Need a commit in BioSQL with MySQL, bugzilla-daemon
- [Bug 2395] Need a commit in BioSQL with MySQL, bugzilla-daemon
- [Bug 2395] Need a commit in BioSQL with MySQL, bugzilla-daemon
[Bug 2394] New: INSERT INTO seqfeature_qualifier_value ..., bugzilla-daemon
- [Bug 2394] INSERT INTO seqfeature_qualifier_value ..., bugzilla-daemon
- [Bug 2394] INSERT INTO seqfeature_qualifier_value ..., bugzilla-daemon
- [Bug 2394] INSERT INTO seqfeature_qualifier_value ..., bugzilla-daemon
[Bug 2393] New: Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
- [Bug 2393] Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
- [Bug 2393] Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
- [Bug 2393] Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
- [Bug 2393] Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
- [Bug 2393] Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
- [Bug 2393] Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
- [Bug 2393] Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
- [Bug 2393] Bio.GenBank.NCBIDictionary fails with release 1.44, bugzilla-daemon
resuming CVS updates, Tiago Antao
- Re: resuming CVS updates, Michiel De Hoon
[Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
- [Bug 2390] Error importing Swiss Prot in BioSQL, bugzilla-daemon
[Bug 2351] Make Seq more like a string, even subclass string?, bugzilla-daemon
- [Bug 2351] Make Seq more like a string, even subclass string?, bugzilla-daemon
- [Bug 2351] Make Seq more like a string, even subclass string?, bugzilla-daemon
- [Bug 2351] Make Seq more like a string, even subclass string?, bugzilla-daemon
- [Bug 2351] Make Seq more like a string, even subclass string?, bugzilla-daemon
- [Bug 2351] Make Seq more like a string, even subclass string?, bugzilla-daemon
- [Bug 2351] Make Seq more like a string, even subclass string?, bugzilla-daemon