[med-svn] [SCM] ray annotated tag, Osiris, created. Osiris

[Sébastien Boisvert]

The annotated tag, Osiris has been created
        at  9784c7ce89950e7b565760747b382483c8f44505 (tag)
   tagging  b8b093f5d879c9d9ae28cf0ec953f50b84fc9c42 (commit)
 tagged by  Sébastien Boisvert
        on  Wed Feb 10 20:14:40 2010 +0000

- Shortlog ------------------------------------------------------------
Checkpoint in the development:

Sébastien Boisvert (48):
      (null)
      Moving stuff around
      Loading a parameter: the directory name
      added a message limit
      Changes, test1, test2, and test3 are working properly
      MPI_Waitall is better
      * possibly proceed separatly for direct and reverse for edges.
      * possibly proceed separatly for direct and reverse for edges.
      * possibly proceed separatly for direct and reverse for edges.
      test1, test2, and SRA001125 file 1 load
      * free message memory
      commit 7938e7a2edaabf8ee0f55eb1b34e30f76e53c015
      test1 and test2 ok with coverage calculation
      Works ok.
      Sending code
      Added command for MPICH2
      commit 6686b74dbe4d2e6ad6577bd1d978602b5d4b77cc
      commit 72db23dd80245fe0706462eda62e138ff2ce94b4
      commit 3c9cb7ae8bcba1e7c0df4a136cdb90536bf11065
      commit 1e3ad1ba3bcb24442b441740b1d42d290fb88c0c
      commit 639ecd60b249491e3523c7d596aa72461297a887
      commit 107f7de8cc18564fe23e7332dd799451e10f067e
      commit 800b776a78e2fa752914917fb5174dfa4381fdc6
      * the seeds are now computed correctly. (need to test stuff in TODO.txt)
      * Fixed problem with Finalize and MPI_Barrier.
      * Fixed a bug in building seeds.
      * will fix these later or never (they are not that important.):
      Seems ok to me:
      * Reads get attached now.
      * Ray returns immediatly if given an invalid configuration file.
      * added version in stdout
      commit 370f620230c9676e0ca8d5dce77ae8f1b33d4cda
      * Show progress when attaching reads.
      * show progress for vertex seeding.
      No message, just commiting stuff.
      Done: now I have 2*n seeds! yay.
      Reduced communication:
      * Fixed a SEG FAULT when sending large sequences.
      Updated TODO .
      This behavior is correct:
      * The coverage of a vertex is now stored as a 'char', with a maximum of 255.
      * Edges are stored as a 'char'.
      * fixed compilation warnings.
      * removed cout's
      The memory usage is lowered, now each vertex is a (uint64_t,char,char,bool)
      Summary of today's work:
      commit ae3f25682210aca70f34272ce21ddeccd18152b9
      Checkpoint in the development:

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