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0.2.0 Release - Gibson Les Paul#51

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nleroy917 merged 67 commits intomasterdatabio/gtars:masterfrom devdatabio/gtars:devCopy head branch name to clipboardJan 13, 2025

Commits

Commits on Dec 5, 2024

• move shifted position logic to its own function

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• add variable_shifted_bam_to_bw for shifted_position workflow

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• minor adjustment removing let

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• add bamshift argument to uniwig

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• some refactoring for bamshift flag

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• update uniwig README.md

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Commits on Dec 9, 2024

• change arg to no-bamshift use references for Flags

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• fix bug when assigning "shift", add clarity in CLI

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• update readme

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• streamline control flow and messaging

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• Merge pull request #50 from databio/dev_position_shift

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• update changelog and version in prep for 0.1.2 release

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• Merge branch 'master' into dev

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Commits on Dec 11, 2024

• account for -1 shift in bam_to_bed and variable_shift_bam workflows

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Commits on Dec 12, 2024

• attempt accumulation fix

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• Attempt fix for #43

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• clamp start position for #43

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• clamp number of counts based on chromsize for #43

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• more work towards #56, skip count for start less than current position

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Commits on Dec 13, 2024

• remove checking first record during bam to bed workflow

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• add bamscale argument for #53

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Commits on Dec 16, 2024

• update changelog (again) for 0.1.2 release

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• update gitignore

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• refactor and add wig_shift variable to reduce code duplication

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• fix for #34, overwrite zoom

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• fix scaling for #53 by changing count and scale to f32

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Commits on Dec 17, 2024

• add ga4gh refget digest functionality

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• minor cleanup

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• add py init for module

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• register digests module correctly

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Commits on Dec 18, 2024

• begin adding more tests to cover igd workflow

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• change nCnts incrementing

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• do not reset nCnts, use it for tests

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• add fields to igd_t struct to help with testing during creation

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• some clean up

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• add new test_igd_create_then_load_from_disk

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• attempt to read from buffer for test_igd_create_then_load_from_disk for test assertions

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Commits on Dec 19, 2024

• update test assertions

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• add igd test create then search

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• potential fix #45, comment out debugging lines

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• update rstest, use cases for new test, rethink source bedfiles and query, remove local tests

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• Fix for #61

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Commits on Dec 20, 2024

• update changelog

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• Merge pull request #60 from databio/dev_igd_45

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• cargo fmt

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• comment out second test case because it sometimes changes order of searched files and fails sporadically.

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• attempt to lessen code cov reqs

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• Revert "attempt to lessen code cov reqs"

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• consolidate get_dynamic_reader

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• Merge pull request #58 from databio/digests

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Commits on Jan 8, 2025

• add newlines to readme

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• add R bindings to readme

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Commits on Jan 9, 2025

• update docs

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• potential fix for #64

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• attempt to use shared hashmap for #65 does not work

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• Revert "attempt to use shared hashmap for #65 does not work"

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• working solution for #65

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• cargo fmt

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Commits on Jan 10, 2025

• comment out r-devel test

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• Merge pull request #66 from databio/dev_64

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• fix for #52

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• cargo fmt

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Commits on Jan 13, 2025

• update changelog for 0.2.0 release

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• add license

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• rust bindings readme

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• Merge branch 'dev' of github.com:databio/gtars into dev

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• bump versions

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