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45 Open 237 Closed
45 Open 237 Closed
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Issues list

unused argument : min.cov in toil-vg vcfeval
#835 opened Jun 11, 2021 by zqfang
2
genotype calling for structral variants
#834 opened Jun 11, 2021 by zqfang
4
toil-vg construct fails at building the GBWT index if you haven't specially specified --vcf_phasing files
#827 opened Jan 1, 2021 by ruolin
1
Encoding issues with coordinates in id_ranges?
#824 opened Aug 27, 2020 by mlinderm
1
1
Make mkdir in dragen job fault tolerant
#821 opened Aug 6, 2020 by cmarkello
@cmarkello
Need better name for analysis subcommand
#817 opened Jul 14, 2020 by cmarkello
@cmarkello
1
Merges to master time out in the CI tests
#812 opened May 29, 2020 by adamnovak
run_whole_alignment doesn't output chromosomal BAMs
#806 opened Apr 24, 2020 by cmarkello
@cmarkello
4
pip not python3 compatible
#804 opened Apr 21, 2020 by wharvey31
6
--force_phasing True on toil-vg construct doesn't work
#777 opened Dec 2, 2019 by adamnovak
2
Flat requirements for whole genome mode are wasteful
#773 opened Nov 15, 2019 by adamnovak
toil-vg call throws XGFormatError: Unimplemented XG format version: 0
#759 opened Aug 27, 2019 by alancleary
4
Pass variant names via the GBWT
#741 opened Mar 27, 2019 by glennhickey
2
toil-vg call takes over two days on yeast graph
#737 opened Mar 15, 2019 by eldariont
12
Support new surject options
#736 opened Mar 13, 2019 by glennhickey
1
Inversion logic timing out tests
#724 opened Mar 1, 2019 by glennhickey
Test time dominated by R compiling stuff
#723 opened Mar 1, 2019 by glennhickey
Multithreaded import doesn't work with S3 jobstore
#703 opened Feb 1, 2019 by glennhickey
1
Too many follow-ons which gbwt pruning with single vcf and many regions
#700 opened Jan 30, 2019 by glennhickey
Support faster GBWT
#670 opened Dec 17, 2018 by glennhickey
3
Support ploidy in sveval
#644 opened Nov 9, 2018 by glennhickey
3rd test fails sporadically on Jenkins
#641 opened Nov 7, 2018 by glennhickey
1
toil-vg wastes time filtering down input VCFs when only asked for the --primary graph enhancement help wanted
#610 opened Aug 20, 2018 by adamnovak
2
Support Local Singularity Images
#600 opened Aug 6, 2018 by cmarkello
@cmarkello
Support GAM subsampling to mapeval on large read counts.
#582 opened Jul 6, 2018 by glennhickey
1
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