• Hoogenboom, Jerry's avatar
    FDSTools v1.1.0.dev3: Fixes and pipelining enhancements · be8dbe46
    Hoogenboom, Jerry authored
    * General changes in v1.1.0.dev3:
      * Allele name heuristics: don't produce insertions at the end of the
        prefix or at the beginning of the suffix; just include extra STR
        blocks.
      * FDSTools will no longer crash with a 'column not found' error when
        an input file is empty. This situation is now treated as if the
        expected columns existed, but no lines of actual data were present.
        This greatly helps in tracking down issues in pipelines involving
        multiple tools, as tools will now shutdown gracefully if an upstream
        tool fails to write output.
    * Allelefinder v1.0.1:
      * Fixed crash that occurred when converting sequences to allele names
        format while no library file was provided.
      * Don't crash when output pipe is closed.
    * BGAnalyse v1.0.1:
      * Don't crash when output pipe is closed.
    * BGCorrect v1.0.2:
      * Don't crash on empty input files.
      * Don't crash when output pipe is closed.
    * BGEstimate v1.1.2:
      * Don't crash when output pipe is closed.
    * BGHomRaw v1.0.1:
      * Clarified the 'Allele x of marker y has 0 reads' error message with
        the sample tag.
      * Don't crash when output pipe is closed.
    * BGHomStats v1.0.1:
      * Error messages about the input data now contain the sample tag of
        the sample that triggered the error.
      * Don't crash when output pipe is closed.
    * BGMerge v1.0.3:
      * Don't crash when output pipe is closed.
    * BGPredict v1.0.2:
      * Don't crash on empty input files.
      * Don't crash when output pipe is closed.
    * FindNewAlleles v1.0.1:
      * Don't crash on empty input files.
      * Don't crash when output pipe is closed.
    * Libconvert v1.1.2:
      * Don't crash when output pipe is closed.
    * Library v1.0.3:
      * Don't crash when output pipe is closed.
    * Seqconvert v1.0.2:
      * Don't crash when output pipe is closed.
    * Samplestats v1.1.1:
      * Don't crash on empty input files.
      * Don't crash when output pipe is closed.
    * Stuttermark v1.5.1:
      * Don't crash on empty input files.
      * Don't crash when output pipe is closed.
    * Stuttermodel v1.1.2:
      * Don't crash when output pipe is closed.
    * TSSV v1.1.0 (additionally):
      * When running analysis in parallel, make tasks of 1 million alignments.
        Previously, this was 10k reads, with the number of alignments per task
        depending on the size of the library file. This caused memory issues for
        huge libraries like whole mt interval libraries.
      * Don't crash when output pipe is closed.
    * Vis v1.0.4:
      * Don't crash when output pipe is closed.
    be8dbe46
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