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Commits on Feb 16, 2022

• tests/run.sh: Update for new default --cons-thres.

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Commits on Feb 1, 2022

• tests/run.sh: Include precheck.py in core tests.

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• tests/correct.families.corrected.tsv: Add missing test output.

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Commits on Jan 28, 2022

• Update correct.py tests for new default --dist 3.

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• Fix Galaxy tool tests.

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Commits on Jan 25, 2022

• tests/unit-tests.py: Fix incompatibility with newer versions of errstats.py.

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Commits on May 26, 2021

• tests: Update consensi tests for make-consensi.py changes.

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Commits on Oct 30, 2020

• tests/run.sh: Add "core" meta test, change how test autodiscovery is done.

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Commits on Oct 28, 2020

• tests/unit-tests.py: Switch to Python 3 only.

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Commits on Aug 21, 2019

• parse-test-align.py: Move from here to nick-bfx repo.

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Commits on Aug 20, 2019

• tests/parse-test-align.py: Fix bug in reverse complementing reverse reads.

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Commits on Aug 19, 2019

• tests/parse-test-align.py: Allow using it for non-duplex reads too.

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Commits on Aug 14, 2019

• tests/compile-overlaps.sh: Turning overlap.align.txt into test inputs.

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Commits on May 17, 2019

• utils/errstats.py: Let user specify any combination of output columns.

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• tests: Update for new errstats behavior.

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Commits on May 15, 2019

• utils/errstats.py: Re-enable indels, fix bug in counting indels at ends of reads.

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Commits on May 14, 2019

• utils/errstats.py: Disable indels entirely.

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• tests/overlap.align.txt: Add more reference lines, add an SNV.

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• tests/overlap.align.txt: Change barcodes to be alphabetically sorted.

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Commits on May 11, 2019

• tests/parse-test-align.py: Allow multiple reference lines, only print barlen on request.

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• tests: Fix overlap.align.txt to produce good alignments.

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• tests: Fix error in parse_test_align filenames, path construction.

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• tests/run.sh: Update errstats_indels for new errstats.py output.

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• tests/parse-test-align.py: Support indels, specify barcodes in file, use constant --const.

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Commits on Apr 24, 2019

• tests: Rename errstats_overlap files, add source file.

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Commits on Apr 20, 2019

• utils/errstats.py: Finish making get_alignment_errors() handle indels.

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Commits on Feb 19, 2019

• tests: Add errstats_indels test and one more test to errstats_simple.

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Commits on Feb 15, 2019

• utils/errstats.py: Add --out-format, rearrange family data structure.

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Commits on Jan 31, 2019

• utils/filter_barcodes.py: Add --invalid-bases filter.

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Commits on Jun 28, 2018

• tests: Remove empty files from test consensi_regression.

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• make-consensi.py: Fix issue #16, add regression test.

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Commits on Jun 25, 2018

• dunovo.py: Add trimmer.py filtering step.

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• tests: Add test for dunovo.py.

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Commits on Jun 1, 2018

• tests/run.sh: Make -p more flexible, finding commands on $PATH or locally and reporting errors.

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• tests: Update a few tests to bugfixed consensus calling behavior.

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