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Releases: rpetit3/camlhmp

v1.1.0

25 Aug 16:51
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v1.1.0 rpetit3/camlhmp "Wild Bactrian" 2024/08/25

Added

  • allow min-coverage and min-coverage params to be set in the yaml
    • Priority:
      • user provided command line arguments (--min-pident and --min-coverage)
      • schema provided values
      • default values specified in the command script

v1.0.1

25 Aug 15:37
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v1.0.1 rpetit3/camlhmp "Bactrian" 2024/08/25

Added

  • camlhmp-blast-thresholds command to suggest specificity thresholds for BLAST results
  • print_versions to print versions from multiple schemas
  • print_camlhmp_version to print the camlhmp version

v1.0.0

15 Aug 20:10
aa11e97
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v1.0.0 rpetit3/camlhmp "Dromedary" 2024/08/15

Added

  • Added a mkdocs documentation site

Fixed

  • fixed camlhmp-blast-regions unnecessary debug output
  • fixed test schemas to match the new schema format

v0.3.1

05 Aug 22:24
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v0.3.1 rpetit3/camlhmp "Maybe a cat?" 2024/08/05

Fixed

  • camlhmp-blast-alleles not having a default value for targets

v0.3.0

05 Aug 20:46
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v0.3.0 rpetit3/camlhmp "More bunnies and fewer baby birds" 2024/08/05

Added

  • camlhmp-blast-alleles command to search alleles in a set of query sequences using BLAST algorithms

v0.2.2

23 Jul 04:06
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v0.2.2 rpetit3/camlhmp "Even a few baby birds" 2024/07/22

Fixed

  • --version flag now works as expected

v0.2.1

23 Jul 00:22
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v0.2.1 rpetit3/camlhmp "And a bunch of birds" 2024/07/22

Added

  • version output with schema name and version

Fixed

  • Empty input files will no longer be processed

v0.2.0

22 Jul 22:06
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v0.2.0 rpetit3/camlhmp "Four little bunnies" 2024/07/22

Added

  • camlhmp-blast-region command to search full regions of interest using BLAST algorithms
  • added camlhmp_version, schema_version, and params to output files

v0.1.0

01 May 00:00
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v0.1.0 rpetit3/camlhmp "Little baby legs" 2024/04/30

Added

  • camhmp command to list all available commands
  • camlhmp-blast command to search for targets in a set of query sequences using BLAST algorithms
  • camlhmp-extract command to extract targets from a set of reference sequences
  • excludes field to types section to allow for exclusion of targets from a profile
  • replaced profiles section with types section to better reflect the schema structure
  • output of results for camlhmp-blast

v0.0.1

25 Apr 04:33
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v0.0.1 rpetit3/camlhmp "Not even walking yet" 2024/04/24

This is a development release for getting things on PyPi and Bioconda. Not expected to be stable.

Added

  • basics of camlhmp with a working example using partial SCCmec