Marcus Breese mbreese

Organizations

@ngsutils @compgen-io
@mbreese
  • @mbreese 811d389
    major refactor - switched to compgen, compgen libs, etc...
@mbreese
  • @mbreese 58a1676
    updates for genomespan ctor and fastasubseq.
@mbreese
  • @mbreese c750895
    updated to catch exceptions when setting options
@mbreese
  • @mbreese 0828cc1
    updated to abstractlinereader to allow for closing the reader mid-ite…
@mbreese
@mbreese
  • @mbreese 128273c
    updated status to display either wait time, elapsed run time, or tota…
@mbreese
  • @mbreese 7225b89
    A few bug fixes - allow lists to be used in target defs, dryrun for SJQ
@mbreese
  • @mbreese c9d4b48
    uniq should be mapped only
@mbreese
  • @mbreese 3f9a6b8
    updated uniq to write to a tmp file first
@mbreese
@mbreese
  • @mbreese 7618ba1
    added a debug message for a loaded pipeline SHA-1
@mbreese
  • @mbreese a2c0440
    output updates for SJQ jobs (when none are actually submitted)
@mbreese
@mbreese
@mbreese
@mbreese
@mbreese
@mbreese
  • @mbreese d82a9dd
    updates to allow for negative numbers to be used in an option, help t…
@mbreese
@mbreese
  • @mbreese f7b2346
    updated progress to be a log better
@mbreese
  • @mbreese eacfd72
    updated some SJQ code, refactored a bit of job running code.
@mbreese
  • @mbreese 85709b8
    updated to support a bit more logging
@mbreese
  • @mbreese 46e8793
    doc update, reformatted pdf
@mbreese
mbreese commented on issue mbreese/swalign#5
@mbreese

What command line / method call are you using? I wonder if the query and ref sequences aren’t getting assigned in the right order. If I remember co…

@mbreese
  • @mbreese 1c71e35
    updates from testing RNA script
@mbreese
  • @mbreese 885fe49
    updated help to remove whitespace (for testing)
@mbreese
@mbreese
  • @mbreese c465c2f
    supress logging when showing help
@mbreese