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Commits on Aug 25, 2011
  1. v0.45 fixed the find/location functions (not optimal).

    Joseph authored Fernando Ortiz committed
Commits on Mar 25, 2011
  1. Joseph Coco

    v0.44 Fixed ParallelBLASTing, MEGAN4 program and download support. Ad…

    Lythimus authored
    …ded Parameters for MEGAN. Minscore now computed as percentage.
Commits on Feb 15, 2011
  1. Joseph Coco

    v0.43

    Lythimus authored
  2. Joseph Coco

    v0.43 Support for non-human host organism. Fixed parallel BLAST deter…

    Lythimus authored
    …mination error. Fixed index-building error.
    
    Close #28.
Commits on Feb 8, 2011
  1. Joseph Coco
Commits on Feb 6, 2011
  1. Joseph Coco
Commits on Feb 5, 2011
  1. Joseph Coco

    v0.40 Added Clean and Clobber. Fixed Denovo Assembly and BLAST file j…

    Lythimus authored
    …oining. Fixed Denovo Assembly indexing.
Commits on Feb 1, 2011
  1. Joseph Coco

    v0.39 Fixed file task dynamic dependency resolution. Fixed preference…

    Lythimus authored
    …s file deletion on error.
    
    Close #45.
  2. Joseph Coco

    v0.38 Fixed Parallel BLASTTAB. Fixed layout of README.md. Fixed secon…

    Lythimus authored
    …d MEGAN file task error. Fixed timing scope error. Fixed task reporting error.
Commits on Jan 28, 2011
  1. Joseph Coco
Commits on Jan 27, 2011
  1. Joseph Coco
  2. Joseph Coco
  3. Joseph Coco

    v0.37 BLASTTAB new used instead of Pairwise for efficiency. Timing in…

    Lythimus authored
    …formation logged for all commands. Conditional dust on BLAST. GI to TaxID Nucleotide database installation.
    
    Close #41. Close #39.
Commits on Jan 23, 2011
  1. Joseph Coco

    v0.36 Parallel BLASTn with no dust. Ability to skip processing steps.…

    Lythimus authored
    … Online link repository.
    
    Changed double quotes to single quotes when possible for clarity. Beginnings of support for MEGAN 4.0 (soon to exit beta).
Commits on Jan 10, 2011
  1. v0.33. Removed FASTA splitting. BLAST+ using standard format now. Upd…

    Joseph authored
    …ated logging.
    
    Closes #3. Logging is not only more robust and correct, but is now linked directly with all shell commands executed. Logging information may be added to reports at some point. Provide useful information about data.
Commits on Dec 31, 2010
  1. v0.32. Fixed FASTA splitting issues. Added ability to install softwar…

    Joseph Coco authored
    …e without additional parameters.
    
    Closes #9. Closes #27.
Commits on Dec 21, 2010
  1. Joseph Coco
Commits on Dec 20, 2010
  1. Joseph Coco

    v0.30 Splitting FASTA files if results are too large to be processed …

    Lythimus authored
    …by BLAST+ now supported. Removed comparison feature of contig comparison.
    
    The MEGAN comparison feature was found to  prevent the ability to change LCA parameters, thus FASTA contigs are joined instead.
Commits on Nov 27, 2010
  1. Joseph Coco

    Fixed MEGAN install for OS X. Fixed read length. Fixed file and file

    Lythimus authored
    type over rides via commandline.
Commits on Nov 25, 2010
  1. Joseph Coco
Commits on Nov 24, 2010
  1. Joseph Coco

    Fixed NT Install, finding files, and post-processor.

    Lythimus authored
    Rewrote the logic to determine if the NT database was installed. Changed
    all find commands to execute locate if it's installed, but if the file
    is not found by locate or if locate is not installed, find is run.
    
    Reserialization of the configuration files was failing, so I added a
    task which will automatically be executed at the end of each task list
    instead. Not fully tested.
Commits on Nov 23, 2010
  1. Joseph Coco

    fixed minor errors in installations and dependency resolution.

    Lythimus authored
    v0.27. Added semi-colons to ends of some of shell commands. Included ability to
    search system for NT database. Added blastInstall to dependency of ntInstall.
  2. Joseph Coco
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