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CHANGELOG.md

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Change Log

All notable changes to this project will be documented in this file. This project adheres to Semantic Versioning.

[ 1.3.1]

[Fixed]

  • Fixed typo that prevented the printing of transparent upd regions for chromosomes with no variants

[ 1.3.0]

[Added]

  • Add support for flags changing DPI: --small (100 DPI), --medium (300 DPI), --large (1000 DPI).

[Changed]

  • Default DPI is now 300, instead of 1000.

[ 1.2.2]

[Changed]

  • Refactored internal code for interfacing command line and program usage as a lib-module. Changes do not change how the program is invoked.

[ 1.2.1]

[Added]

  • Fix DPI of area graphs to 1000.

[ 1.2.0]

[Added]

  • Add support for exom coverage.

[1.1.5]

[Fixed]

  • Write transparent png:s instead of empty (which actually where not empty)

[1.1.4]

[Added]

  • Add option --chunk / -u to set Matplotlib chunk size from commandline

[1.1.3]

[Changed]

  • Exit(0) instead of exit(1) when empty bedfile given as input

[1.1.2]

[Fixed]

  • Typo bug

[1.1.1]

[Fixed]

-Adjust chunksize to stop Matplotlib from throwing OverflowError

[1.1]

Added

-Test files of every supported type

Changed

-Isodisomy to replace homodisomy in code, backwards compatible

Fixed

-Bug fixed when parsing UPD regions -Delete tmp files added to repo by mistake

[1.0.2]

Fixed

-Better check for 37 vs 38 name convention -Handle empty string in parsing -Check for empty dataframe

[1.0.1]

Fixed

-Don't crash on empty BED file

[1.0.0]

Added

-Add support for autozygosity bed:s. -Add support for fraction of homozygosity wig:s

Changed

-Command line arguments name and flags are changed. Not backwards compatible. -Printed colors daker and uniform

Fixed

-Bug that wrote over output -Debug prints removed

[0.3.6]

Added

  • Region UPD pictures are now split in the middle to visually indicate two chromosomes.

[0.3.5]

Added

  • Pixel perfect prints 7750 X 385 px

[0.3.4]

Added

  • Picture DPI increase from 100 X 100 to 1000 X 1000

Fixed

  • Alignment of BED files was offset

[0.3.3]

Fixed

  • Coverage plots from Tiddit data was printed strange

[0.3.2]

Added

  • Add Support for Hetero/Isodisomy of UPD Region Files.

[0.3.1]

Fixed

  • Bugfix: outd ignored for upd sites

[0.3.0]

Added

  • Change flag "upd" to "sites

Fixed

  • Refactor code

[0.2.1]

Fixed

  • When using euploid flag written empty png:s did not match correct genome prefix (37 vs 38)

[0.2.0]

Added

  • Option --euploid
  • More Pytest tests

Fixed

  • Better follows Pylint (though far from perfect)

[0.1.3]

Added

  • Support for second guessing ideogram bed file chromosome format (i.e. 1 or chr1)
  • Test file test_chr_utils.py

Fixed

  • Bug: Sloping graphs
  • Bug: use os.path instead of concatenating string

[0.1.2]

Added

  • Improved args handling

Fixed

  • Bug: Remove dependency on X display

[0.1.1]

Fixed

  • Configured and parameterized WIG step was previously ignored
  • Bug when sometimes malplaced linear slopes appeared in coverage pictures

[0.1]

First version.