Changes between Version 2 and Version 3 of BioPerlRoundTripSecondPass

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Timestamp:
2008/02/13 12:20:42 (10 years ago)
Author:
heikki
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  • BioPerlRoundTripSecondPass

    v2 v3  
    2121   * The downloaded sequence file was mysteriously mangled. New file uploaded. Parser works. 
    2222   * '''Note:''' EMBL format does not have a separate name any more. The primary accession number is now the name on the ID line. 
    23  * MAJOR: OX line for !TaxId is lost 
     23 * ~~MAJOR: OX line for !TaxId is lost~~ 
     24   * An other error caused by the mangled entry 
     25   * The FT key '''source''' contains qualifier db_xref to the taxon 
    2426 * minor: only the actual date on the DT (date) line is kept, release information and document version is lost. 
    2527   * '''Note:''' We now track only the sequence version from the ID line, not the document version from the second DT line. 
    26    * '''Note:''' BioSQL can store both versions. Should we update the BioPerl Bio::Seq::RichSeqI API to have document version, too? 
     28   * '''Note:''' BioSQL can store both versions. Should we update the !BioPerl Bio::Seq::RichSeqI API to have document version, too? 
    2729{{{ 
    2830DT   27-FEB-1998 (Rel. 54, Created) 
     
    4648 
    4749 * MAJOR: SOURCE line adds full stop to the end of the line (following old genbank conversion?) 
    48  * minor: line BASE not present in recent genbank file, still generated by bioperl 
     50 * minor: line BASE not present in recent genbank file, still generated by !BioPerl 
    4951 * minor: features are not returned in order 
    5052