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Page WeeklyReport

Weekly reports about this master thesis: "Genomes per EMail - efficient compression of biological sequences". .

Week 1 (24.05.2010 - 30.05.2010)

  • Write expose for Master Thesis
  • Structuring Master Thesis
    • Brief task structure
    • Create requirement list
    • Create Work Breakdown Structure (WBS)
  • Set up wiki sites

break

Week 2 (06.09.2010 - 12.09.2010)

  • Implemented interface to generate Journal out of an alignment
  • Implemented interface to adapt mismatches within an alignment to insertions/deletions

Week 3 (13.09.2010 - 29.09.2010)

  • Implemented basic string set structure for journal strings
    • appandValue method, that searches for identical reference sequences within the set and applies new journal to corresponding group

Week 4 (20.09.2010 - 26.09.2010)

  • Implemented group object to manage groups in a string - used for string set of journals
  • Implemented iterator for groups in a string

Week 5 (27.09.2010 - 03.10.2010)

  • Implemented insert method for string set of journals

Week 6 (04.10.2010 - 10.10.2010)

  • Implemented several interfaces

Baby-pause

  • Became a dad smile

Week 7 (03.01.2011 - 09.01.2011)

  • Implemented join interface for string set

Week 8 (10.01.2011 - 16.01.2011)

  • Refactoring of prototypic join interfaces

Week 9 (17.01.2011 - 23.01.2011)

  • Developing synchronization algorithm for two journal trees

Week 10 (24.01.2011 - 30.01.2011)

  • Implemented synchronization algorithm for two journal trees
  • Preparing report of current status

Week 11 (31.01.2011 - 06.02.2011)

  • Report
  • Refactgoring of synchronization algorithm
  • Extended string set interface for certain group access

Week 12 (07.01.2011 - 13.02.2011)

  • Extended Score class with specialization ExtendedScore, which supports double affine gap costs
  • Adapted Gotoh-Algorithm for double affine gap costs
  • Implemented merge interface for groups

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