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Commits on Mar 10, 2020

• Updated INSTALL, see samtools#1172

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Commits on Mar 5, 2020

• Add tests for 7a131a2

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• Remove unused test output files

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• Fix in gvcf merging

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Commits on Feb 20, 2020

• Merge pull request samtools#1159 from jmarshall/assert-spelling

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• Spelling corrections [minor]

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• Use #include <assert.h> in source files that use assert()

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Commits on Feb 19, 2020

• Fix a small memory leak

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• Determine the case of the fasta sequence locally,

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Commits on Feb 18, 2020

• Overlapping deletions must not be forgotten in subsequent records with -a N.

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Commits on Feb 16, 2020

• Prevent segfault if no input file passed to +fill-tags

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• Rename the option --output-file to --output to make it consistent across bcftools commands.

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Commits on Feb 14, 2020

• Add a simple test for gtcheck

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Commits on Feb 6, 2020

• Fix samtools#1149

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Commits on Jan 30, 2020

• New --keep-sum option. Resolves samtools#360

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Commits on Jan 28, 2020

• Several roh fixes

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• Fix bug in splitting which leads in a corrupt FORMAT output

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Commits on Jan 20, 2020

• Fix a typo, add forgotten const format string to printf

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• Add support for multisample output and sample renaming

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Commits on Jan 16, 2020

• Make --SnpGap optionally filter also SNPs close to other types. Resolves samtools#1126

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• Improve error message on failed plugin dlopen. Resolves samtools#1135

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Commits on Jan 15, 2020

• Add a warning note to prevent problems like samtools#1070

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Commits on Jan 9, 2020

• Add check for duplicate and conflicting trios

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• Add new %N_PASS(..) formatting expression

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Commits on Jan 5, 2020

• Fix bug in gVCF merging

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Commits on Jan 2, 2020

• Prevent segfault when INFO fields are present, unpack needs to be called

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• Add new ad-bias -c, --clean-vcf option

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Commits on Dec 28, 2019

• Add new -a, --absent option.

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Commits on Dec 20, 2019

• Merge version number bump and NEWS file from master

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• Add new --keep-duplicates option

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• Minor: add explanatory comment

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Commits on Dec 19, 2019

• Release 1.10.2

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Commits on Dec 16, 2019

• Add tests for samtools#1123

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Commits on Dec 12, 2019

• Rename --force to --force-AD for possible future additions

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Commits on Dec 11, 2019

• Print a warning and skip VAF calculation instead of exiting

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