hicConvertFormat hicpro to h5, warning and job killed

[TheCatalyticMicroChip]

Hi. I am trying to convert hicpro to h5 format and I am getting a warning and my job is killed. Here's my command: hicConvertFormat --matrices name_1_5000.matrix --bedFileHicpro name_1_5000_abs.bed --inputFormat hicpro --outputFormat h5 --outFileName name_1_5000.h5 --resolutions 5000

The output: INFO:numexpr.utils:Note: NumExpr detected 32 cores but "NUMEXPR_MAX_THREADS" not set, so enforcing safe limit of 8. INFO:numexpr.utils:NumExpr defaulting to 8 threads. Killed

hicInfo 2.2.1.1 python 3.7

I used pip install

Thanks.

[TheCatalyticMicroChip]

Needed to change mem-per-cpu

[Zheng19w]

Needed to change mem-per-cpu How to change mem-per-cpu

(Hic) [zheng1996@hlogin12 Hic]$ /public/home/aczhzv5pmn/software/Anaconda/anaconda3-3d/envs/hicexplore/bin/hicPlotMatrix --matrix /public/home/zheng1996/Hic/hicpro2cool/scrofa-Hi-C-muscle.10000.cool -t 100 --outFileName hicexplore_plot.png --log --dpi 300 INFO:numexpr.utils:Note: detected 128 virtual cores but NumExpr set to maximum of 64, check "NUMEXPR_MAX_THREADS" environment variable. INFO:numexpr.utils:Note: NumExpr detected 128 cores but "NUMEXPR_MAX_THREADS" not set, so enforcing safe limit of 8. Killed

[TheCatalyticMicroChip]

I increased mem-per-cpu from 32G to 64G from an interactive job in our HPC.

[Zheng19w]

thanks

---- Replied Message ---- | From | @.> | | Date | 06/04/2022 22:11 | | To | @.> | | Cc | @.**@.> | | Subject | Re: [deeptools/HiCExplorer] hicConvertFormat hicpro to h5, warning and job killed (Issue #786) |

I increased mem-per-cpu from 32G to 64G from an interactive job in our HPC.

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