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Issues list

mamba enhancement New feature or request
#52 opened Jun 29, 2023 by portbo
ERROR conda.core.link:_execute(730) bug Something isn't working
#47 opened Jul 8, 2022 by xuanxuan-Jin
Exit (1) error when running pipeline using example data. bug Something isn't working
#46 opened Jun 23, 2022 by rm1238
2
add GT info to the VCFs enhancement New feature or request
#43 opened Apr 1, 2022 by shinlin77 VarCA v2.2.0
@aryarm
11
handling a scATAC custom reference genome from 10x documentation Improvements or additions to documentation
#41 opened Feb 19, 2022 by aryarm
2
Not all of the samples requested have provided input
#40 opened Sep 9, 2021 by umasstr
6
warn or error gracefully if index files don't exist enhancement New feature or request
#39 opened Sep 3, 2021 by aryarm
@aryarm
Error: "An output file is marked as pipe, but consuming jobs are part of conflicting groups." bug Something isn't working
#38 opened Aug 12, 2021 by Rubbert VarCA v2.2.0
@aryarm
11
Single-end support enhancement New feature or request
#37 opened Aug 4, 2021 by Rubbert VarCA v2.2.0
@aryarm
2
comply with snakemake standards enhancement New feature or request
#35 opened Jul 14, 2021 by aryarm VarCA v2.2.0
@aryarm
a smaller test dataset enhancement New feature or request
#33 opened Jul 4, 2021 by aryarm
5 of 9 tasks
VarCA v2.2.0
@aryarm
prepare.yml environment yields conflicts with strict channel_priority bug Something isn't working
#30 opened Jun 26, 2021 by aryarm VarCA v2.2.0
@aryarm
2
Vardict error. duplicate This issue or pull request already exists
#24 opened Mar 12, 2021 by lindenb
1
excessive memory usage when predicting variants bug Something isn't working help wanted Extra attention is needed
#21 opened Oct 26, 2020 by aryarm
2
ldpaths error when using prepare.yaml conda env bug Something isn't working help wanted Extra attention is needed wontfix This will not be worked on
#20 opened Oct 23, 2020 by aryarm
1
only install the necessary variant caller dependencies breaking this will break backwards-compatibility enhancement New feature or request
#19 opened Jul 15, 2020 by aryarm VarCA v2.2.0
@aryarm
1
snakemake validation breaking this will break backwards-compatibility enhancement New feature or request low-priority
#18 opened Jun 30, 2020 by aryarm VarCA v2.2.0
@aryarm
1
run the post-processing steps in the prepare pipeline in parallel enhancement New feature or request low-priority
#14 opened Jun 9, 2020 by aryarm
4 tasks done
VarCA v2.2.0
@aryarm
output figures in a snakemake report enhancement New feature or request low-priority
#7 opened Jan 5, 2020 by aryarm
don't use gatk selectvariants + allow varca to output SNVs and indels in the same VCF enhancement New feature or request wontfix This will not be worked on
#2 opened Jul 15, 2019 by aryarm
4 tasks
1
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