Commits

History for

Commits on Mar 31, 2026

Fix type mismatch in ccall.c and division by zero in mcall.c

sirus20x6
authored and
pd3
committed
944cebd

Commits on Feb 16, 2026

Wrap ctype.h functions to avoid array subscript warnings

daviesrob
authored and
jkbonfield
committed
34a4976

Commits on May 29, 2024

Fix typos

cmdcolin
authored and
pd3
committed
5d48dbc

Commits on Oct 23, 2023

New -*,--keep-unseen-allele option. Resolves #2015
pd3
committed
3b24f36

Commits on Sep 20, 2022

Fix a memory corruption bug with too many alleles passed to `-C alleles` via `-T`
pd3
committed
99f3988

Commits on Aug 24, 2021

Resolve a "fixme" case in `call -C alleles`
pd3
committed
cf5f289

Commits on Jun 23, 2021

Summer 2021 release copyright updates.
whitwham
committed
a1e68db

Commits on Jan 19, 2021

Add explicit --group-samples-tag option. Resolves #1370
pd3
committed
e4bc1b7

Commits on Dec 7, 2020

[NEWS] Revamp of `bcftools call -G`
pd3
committed
0f4aed2

Commits on Feb 20, 2020

Use #include <assert.h> in source files that use assert()
jmarshall
committed
42d777e

Commits on Sep 9, 2019

Prepare for 64-bit positions
daviesrob
committed
aec5177

Commits on May 30, 2019

Fix possible out of bounds write in mcall_constrain_alleles()
daviesrob
committed
5bcc386

Commits on May 8, 2019

Keep compiler happy, get rid of the harmless "igrp may be used uninitialized" warning
pd3
committed
367492e

Commits on May 6, 2019

Add new `bcftools call -G, --group-samples` option
pd3
committed
33ecfe8

Commits on Nov 17, 2018

More informative error message to help resolve issues like #915
pd3
committed
55209b7
`call -C allels -i` should not skip sites. Fixes #913
pd3
committed
8457b56

Commits on Sep 24, 2018

Make FORMAT/AD work with `call -C alleles`
pd3
committed
d88fa65

Commits on Apr 28, 2017

Fix #535
pd3
committed
6cb790c

Commits on Apr 5, 2017

Tidy upsfor C99 / _XOPEN_SOURCE=700 compliance.
jkbonfield
committed
a2cfe96

Commits on Feb 23, 2017

cleanup clang compiler warnings
mcshane
committed
eaf74ca

Commits on Jan 19, 2017

Fix the QUAL calculation at REF-only sites and the use of AFs obtained from QS in haploid calling
pd3
committed
7c56870

Commits on Jan 3, 2017

Allow PLs>=256 in call -m
pd3
committed
39c70ae

Commits on Jul 22, 2016

call: improve QUAL calculation (#449)
mcshane
authored
66b6e76

Commits on May 3, 2016

call: new `-F, --prior-freqs` option

pd3
authored and
mcshane
committed
0a5e8f8
mcall: trim all `Number=R` tags

pd3
authored and
mcshane
committed
0c88e1a

Commits on Dec 7, 2015

call -mC alleles fix: Do not take X as last in ALT list for granted

pd3
authored and
mcshane
committed
71921ca

Commits on Nov 18, 2015

Prevent empty PL fields on BCF output with "call -C alleles"

pd3
authored and
mcshane
committed
8e8679d

Commits on Oct 15, 2015

genaralise mcall_trim_numberR beyond DPR to any Number=R/Type=Integer tag
mcshane
committed
dacc705

Commits on Sep 30, 2015

Bringing "call --gvcf" from experimental to main repo.

pd3
authored and
mcshane
committed
6d2faf2

Commits on Sep 25, 2015

Fixed bug in trio calling introduced by bcc7b26e

pd3
authored and
mcshane
committed
c29c8c3

Commits on Aug 5, 2015

call -m fix: skip sites with too many alleles (>32) instead of silently overwriting internal data structures..

pd3
authored and
mcshane
committed
3b0378f

Commits on Dec 5, 2014

call: Trim FORMAT/DPR for REF-only sites as well
pd3
committed
ef4dc23

Commits on Nov 7, 2014

Calling improvements:
pd3
committed
802ff30

Commits on Nov 5, 2014

call: -A must not include records discarded by -v with -m
pd3
committed
4ca1ab8

Commits on Oct 21, 2014

Do not use 0x80 & co for missing alleles
pd3
committed
bcc7b26