March 2009 Archives by author

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Starting: Sun Mar 1 12:17:28 UTC 2009
Ending: Tue Mar 31 21:38:48 UTC 2009
Messages: 256

• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] biopython on github   Tiago Antão
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Sebastian Bassi
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Sebastian Bassi
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Sebastian Bassi
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Sebastian Bassi
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Sebastian Bassi
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Sebastian Bassi
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Sebastian Bassi
• [Biopython-dev] library to create gel image   Jose Blanca
• [Biopython-dev] library to create gel image   Jose Blanca
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Jose Blanca
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Jose Blanca
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Jose Blanca
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Jose Blanca
• [Biopython-dev] function to map uniprot IDs with PDB IDs   Lorena Carló
• [Biopython-dev] biopython on github   Brad Chapman
• [Biopython-dev] biopython on github   Brad Chapman
• [Biopython-dev] Preparing for Biopython 1.50 (beta)   Brad Chapman
• [Biopython-dev] biopython on github   Brad Chapman
• [Biopython-dev] Preparing for Biopython 1.50 (beta)   Brad Chapman
• [Biopython-dev] biopython on github   Brad Chapman
• [Biopython-dev] biopython on github   Brad Chapman
• [Biopython-dev] biopython on github   Brad Chapman
• [Biopython-dev] biopython on github   Brad Chapman
• [Biopython-dev] Biopython on Twitter   Brad Chapman
• [Biopython-dev] Testing Biopython with NumPy 1.3   Brad Chapman
• [Biopython-dev] Multiple alignment - Clustalw etc...   Brad Chapman
• [Biopython-dev] Google Summer of Code -- phyloXML parser project   Brad Chapman
• [Biopython-dev] Biopython on Twitter   Brad Chapman
• [Biopython-dev] biopython on github   Peter Cock
• [Biopython-dev] biopython on github   Peter Cock
• [Biopython-dev] Test - ignore   Cymon Cox
• [Biopython-dev] Multiple alignment - Clustalw etc...   Cymon Cox
• [Biopython-dev] Multiple alignment - Clustalw etc...   Cymon Cox
• [Biopython-dev] Multiple alignment - Clustalw etc...   Cymon Cox
• [Biopython-dev] biopython on github   Giovanni Marco Dall'Olio
• [Biopython-dev] biopython on github   Giovanni Marco Dall'Olio
• [Biopython-dev] biopython on github   Giovanni Marco Dall'Olio
• [Biopython-dev] biopython on github   Giovanni Marco Dall'Olio
• [Biopython-dev] biopython on github   Giovanni Marco Dall'Olio
• [Biopython-dev] biopython on github   Giovanni Marco Dall'Olio
• [Biopython-dev] biopython on github   Giovanni Marco Dall'Olio
• [Biopython-dev] biopython on github   Giovanni Marco Dall'Olio
• [Biopython-dev] [Bug 2759] Unit test for Bio.PDB.HSExposure   Giovanni Marco Dall'Olio
• [Biopython-dev] Preparing for Biopython 1.50 (beta)   Iddo Friedberg
• [Biopython-dev] It's out!   Iddo Friedberg
• [Biopython-dev] ScanProsite   Michiel de Hoon
• [Biopython-dev] ScanProsite   Michiel de Hoon
• [Biopython-dev] Bio.ExPASy   Michiel de Hoon
• [Biopython-dev] Fw: Re: Bio.Entrez catching more errors   Michiel de Hoon
• [Biopython-dev] Bio.Entrez catching more errors   Michiel de Hoon
• [Biopython-dev] Bio.Enzyme (was: Re: Bio.ExPASy)   Michiel de Hoon
• [Biopython-dev] biopython on github   Michiel de Hoon
• [Biopython-dev] Bio.Entrez catching more errors   Michiel de Hoon
• [Biopython-dev] Testing Biopython with NumPy 1.3   Michiel de Hoon
• [Biopython-dev] biopython on github   Chris Lasher
• [Biopython-dev] biopython on github   Chris Lasher
• [Biopython-dev] biopython on github   Chris Lasher
• [Biopython-dev] Help pages in Biopython wiki   Chris Lasher
• [Biopython-dev] Help pages in Biopython wiki   Chris Lasher
• [Biopython-dev] biopython on github   Steve Lianoglou
• [Biopython-dev] biopython on github   Steve Lianoglou
• [Biopython-dev] biopython on github   Paulo Nuin
• [Biopython-dev] biopython on github   Paulo Nuin
• [Biopython-dev] ScanProsite   Peter
• [Biopython-dev] Fwd: [Utilities-announce] NCBI E-Utilities requirements updated   Peter
• [Biopython-dev] determining the version   Peter
• [Biopython-dev] determining the version   Peter
• [Biopython-dev] [Utilities-announce] NCBI E-Utilities requirements updated   Peter
• [Biopython-dev] Bio.Entrez catching more errors   Peter
• [Biopython-dev] function to map uniprot IDs with PDB IDs   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] library to create gel image   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] Preparing for Biopython 1.50 (beta)   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] history on github - where are the tags?   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] gitignore file for github   Peter
• [Biopython-dev] gitignore file for github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] Preparing for Biopython 1.50 (beta)   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] PDB Parser error   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] Preparing for Biopython 1.50 (beta)   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] Help pages in Biopython wiki   Peter
• [Biopython-dev] Bio.Entrez catching more errors   Peter
• [Biopython-dev] [Bug 2759] Unit test for Bio.PDB.HSExposure   Peter
• [Biopython-dev] PDB tidy script, was: [Bug 275   Peter
• [Biopython-dev] PDB tidy script   Peter
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Peter
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Peter
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Peter
• [Biopython-dev] history on github - where are the tags?   Peter
• [Biopython-dev] Bio.Entrez catching more errors   Peter
• [Biopython-dev] history on github - where are the tags?   Peter
• [Biopython-dev] history on github - where are the tags?   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] biopython on github   Peter
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Peter
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Peter
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Peter
• [Biopython-dev] Biopython on Twitter   Peter
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Peter
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Peter
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Peter
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Peter
• [Biopython-dev] Biopython on Twitter   Peter
• [Biopython-dev] Testing Biopython with NumPy 1.3   Peter
• [Biopython-dev] Testing Biopython with NumPy 1.3   Peter
• [Biopython-dev] Testing Biopython with NumPy 1.3   Peter
• [Biopython-dev] test_Nexus.py and NamedTemporaryFile mode   Peter
• [Biopython-dev] Testing Biopython with NumPy 1.3   Peter
• [Biopython-dev] Multiple alignment - Clustalw etc...   Peter
• [Biopython-dev] Biopython on Twitter   Peter
• [Biopython-dev] Testing Biopython with NumPy 1.3   Peter
• [Biopython-dev] Testing Biopython with NumPy 1.3   Peter
• [Biopython-dev] Python's new DVCS chosen   Peter
• [Biopython-dev] Python's new DVCS chosen   Peter
• [Biopython-dev] Multiple alignment - Clustalw etc...   Peter
• [Biopython-dev] Easy Git - git for mere mortals?   Peter
• [Biopython-dev] Multiple alignment - Clustalw etc...   Peter
• [Biopython-dev] SeqIO and qual: Question about reading and writing qual files   Peter
• [Biopython-dev] Plan for Biopython 1.50 (beta)   Peter
• [Biopython-dev] biopython on github   Leighton Pritchard
• [Biopython-dev] biopython on github   Leighton Pritchard
• [Biopython-dev] Preparing for Biopython 1.50 (beta)   Leighton Pritchard
• [Biopython-dev] Help pages in Biopython wiki   Leighton Pritchard
• [Biopython-dev] biopython on github   Leighton Pritchard
• [Biopython-dev] Biopython on Twitter   Leighton Pritchard
• [Biopython-dev] Biopython on Twitter   Leighton Pritchard
• [Biopython-dev] Preparing for Biopython 1.50 (beta)   David Schruth
• [Biopython-dev] determining the version   Bruce Southey
• [Biopython-dev] [Bug 2759] Unit test for Bio.PDB.HSExposure   Eric Talevich
• [Biopython-dev] [Bug 2759] Unit test for Bio.PDB.HSExposure   Eric Talevich
• [Biopython-dev] [Bug 2754] Bio.PDB: Parse warnings should print to stderr, not stdout   Eric Talevich
• [Biopython-dev] PDB tidy script, was: [Bug 275   Eric Talevich
• [Biopython-dev] PDB tidy script   Eric Talevich
• [Biopython-dev] [BioPython] about the SeqRecord slicing   Eric Talevich
• [Biopython-dev] Google Summer of Code -- phyloXML parser project   Eric Talevich
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] history on github - where are the tags?   Bartek Wilczynski
• [Biopython-dev] history on github - where are the tags?   Bartek Wilczynski
• [Biopython-dev] history on github - where are the tags?   Bartek Wilczynski
• [Biopython-dev] history on github - where are the tags?   Bartek Wilczynski
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] biopython on github   Bartek Wilczynski
• [Biopython-dev] Python's new DVCS chosen   Bartek Wilczynski
• [Biopython-dev] Python's new DVCS chosen   Bartek Wilczynski
• [Biopython-dev] PDB Parser error   Rodrigo faccioli
• [Biopython-dev] [Bug 2495] parse element symbols for ATOM/HETATM records (Bio.PDB.PDBParser)   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2292] Bio.PDBIO writes TER records without any required fields   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2774] New: Bio.PDBIO.save doesn't write the required END record   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2776] New: Bio.pairwise2 returns non-optimal alignment in at least some cases   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2777] New: [Solution is one line change!] Entity sorting altered by detach_child() calls   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2777] [Solution is one line change!] Entity sorting altered by detach_child() calls   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2777] [Solution is one line change!] Entity sorting altered by detach_child() calls   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2777] [Solution is one line change!] Entity sorting altered by detach_child() calls   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2777] [Solution is one line change!] Entity sorting altered by detach_child() calls   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2774] Bio.PDBIO.save doesn't write the required END record   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2778] New: Efficiency improvement in function Bio.SeqUtils.GC()   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2778] Efficiency improvement in function Bio.SeqUtils.GC()   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] New: Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2678] Bio.Entrez module does not always retrieve or find DTD files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2780] New: PDB file HETATMs cannot be alternative location of a residue that is an ATOM   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2678] Bio.Entrez module does not always retrieve or find DTD files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2780] PDB file HETATMs cannot be alternative location of a residue that is an ATOM   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2778] Efficiency improvement in function Bio.SeqUtils.GC()   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2781] New: Bio.PDB Structure instances cannot be deepcopied   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2507] Adding __getitem__ to SeqRecord for element access and slicing   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2551] Adding advanced __getitem__ to generic alignment, e.g. align[1:2, 5:-5]   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2767] Bio.SeqIO support for FASTQ and QUAL files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2778] Efficiency improvement in function Bio.SeqUtils.GC()   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2778] Efficiency improvement in function Bio.SeqUtils.GC()   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2778] Efficiency improvement in function Bio.SeqUtils.GC()   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2551] Adding advanced __getitem__ to generic alignment, e.g. align[1:2, 5:-5]   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2767] Bio.SeqIO support for FASTQ and QUAL files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2779] Seq.count() docstring should note unexpected behaviour   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2783] New: Using alternative start codons in Bio.Seq translate method/function   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2783] Using alternative start codons in Bio.Seq translate method/function   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2381] translate and transcribe methods for the Seq object (in Bio.Seq)   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2783] Using alternative start codons in Bio.Seq translate method/function   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2783] Using alternative start codons in Bio.Seq translate method/function   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2762] GFF capability in SeqIO   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2783] Using alternative start codons in Bio.Seq translate method/function   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2788] New: Bio.Nexus.Trees newick parser crash   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2788] Bio.Nexus.Trees newick parser crash   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2788] Bio.Nexus.Trees newick parser does not support internal node labels   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2543] Bio.Nexus.Trees can't handle named ancestors   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2780] PDB file HETATMs cannot be alternative location of a residue that is an ATOM   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2790] New: Genepop parser creates a full representation of the file on memory   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2791] New: GenBank Scanner does not parse environmental (ENV) files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2791] GenBank Scanner does not parse environmental (ENV) files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2791] GenBank Scanner does not parse environmental (ENV) files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2767] Bio.SeqIO support for FASTQ and QUAL files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2767] Bio.SeqIO support for FASTQ and QUAL files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2777] [Solution is one line change!] Entity sorting altered by detach_child() calls   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2654] Bio.Blast.NCBIStandalone does not support the output file argument   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2654] Bio.Blast.NCBIStandalone does not support the output file argument   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2678] Bio.Entrez module does not always retrieve or find DTD files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2678] Bio.Entrez module does not always retrieve or find DTD files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2767] Bio.SeqIO support for FASTQ and QUAL files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2770] suggestion: raise a warning if Entrez.email is not set   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2718] Bio.Graphics and output file formats (PDF, EPS, SVG, and bitmaps)   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2795] New: Add commit, rollback, close to DBServer object   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2795] Add commit, rollback, close to DBServer object   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2795] Add commit, rollback, close to DBServer object   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2795] Add commit, rollback, close to DBServer object   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2754] Bio.PDB: Parse warnings should print to stderr, not stdout   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2754] Bio.PDB: Parse warnings should print to stderr, not stdout   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2678] Bio.Entrez module does not always retrieve or find DTD files   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2771] Bio.Entrez.read can't parse XML files from dbSNP (snp database)   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2759] Unit test for Bio.PDB.HSExposure   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2759] Unit test for Bio.PDB.HSExposure   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2754] Bio.PDB: Parse warnings should print to stderr, not stdout   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2799] New: UnknownSeq object (e.g. for QUAL files)   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2799] UnknownSeq object (e.g. for QUAL files)   bugzilla-daemon at portal.open-bio.org
• [Biopython-dev] [Bug 2799] UnknownSeq object (e.g. for QUAL files)   bugzilla-daemon at portal.open-bio.org

Last message date: Tue Mar 31 21:38:48 UTC 2009
Archived on: Mon Jun 16 03:55:16 UTC 2014

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