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dnanexus-rnd / GLnexus

Scalable gVCF merging and joint variant calling for population sequencing projects
Apache License 2.0
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bucket size should be in (1,1e9] #253

Closed dridk closed 3 years ago

dridk commented 3 years ago

Hi,

I get the following error when running GLnexus . ( without docker, compiled on Ubuntu 20.04.2 LTS )

glnexus_cli -x DeepVariantWES -sequeeze -bed /mnt/R60/bioinformatique/hg38/bed/S33266340_Padded_hg38.noheader.bed OneSegHumanFemale1.deepvariant.gvcf OneSegHumanFemale2.deepvariant.gvcf OneSegHumanFemale3.deepvariant.gvcf OneSegHumanFemale4.deepvariant.gvcf SGT152803pur1.deepvariant.gvcf SGT152803pur2.deepvariant.gvcf SGT153103nonpur1.deepvariant.gvcf SGT153103nonpur2.deepvariant.gvcf > merge.deepvariant.bcf
[460290] [2021-05-05 09:34:30.760] [GLnexus] [info] glnexus_cli release v1.3.1-0-g0e1c9c9 May  5 2021
[460290] [2021-05-05 09:34:30.760] [GLnexus] [warning] jemalloc absent, which will impede performance with high thread counts. See https://github.com/dnanexus-rnd/GLnexus/wiki/Performance
bucket size should be in (1,1e9]
dridk commented 3 years ago

Sorry.. I just realize I used the wrong argument "-x"...