Changes between Initial Version and Version 1 of OutstandingMinorDifferences

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Timestamp:
2008/02/25 18:51:01 (11 years ago)
Author:
heikki
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  • OutstandingMinorDifferences

    v1 v1  
     1= !BioPerl Outstanding Issues in roundtripping = 
     2 
     3At bioperl-live SVN revision 14544. 
     4 
     5All known issues below are classified as minor. 
     6 
     7== fasta == 
     8 
     9* possible minor issue: !BioPerl does not parse in  sequence version nor fasta from genbank with a gi number. BioRuby does that. Should we? 
     10 
     11== genbank == 
     12 
     13* FT qualifier lines are not returned in order 
     14 
     15== embl == 
     16 
     17 * minor: only the actual date on the DT (date) line is kept, release information and document version is lost. 
     18   * '''Note:''' We now track only the sequence version from the ID line, not the document version from the second DT line. 
     19   * '''Note:''' BioSQL can store both versions. Should we update the !BioPerl Bio::Seq::RichSeqI API to have document version, too? 
     20{{{ 
     21DT   27-FEB-1998 (Rel. 54, Created) 
     22DT   14-NOV-2006 (Rel. 89, Last updated, Version 6) 
     23-> 
     24DT   27-FEB-1998 
     25DT   14-NOV-2006 
     26}}} 
     27 * minor: Word wrapping differences if free text lines, especially in author lists 
     28   **  Line 'RL   Submitted (date) to the EMBL/GenBank/DDBJ databases.' is shorter then 80, so the affiliation from the following line gets wrapped into this line. 
     29 * minor: the feature key/value pairs (FT) are not returned in order 
     30