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"Segmentation fault (core dumped)" when i was running the fastspar_bootstrap step #39

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1362996609zby opened this issue Nov 6, 2024 · 3 comments

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@1362996609zby
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(fastspar_env) root@LAPTOP-RCQ2QTQ1:/mnt/e/zby/JJ/fastspar# python /mnt/e/zby/jj/fastspar/fastspar.py
Running command: fastspar_bootstrap --otu_table /mnt/e/zby/jj/fastspar/fake_data.tsv --number 1000 --prefix /mnt/e/zby/jj/fastspar/output/bootstrap_counts/fake_data
Error running command: fastspar_bootstrap --otu_table /mnt/e/zby/jj/fastspar/fake_data.tsv --number 1000 --prefix /mnt/e/zby/jj/fastspar/output/bootstrap_counts/fake_data
Segmentation fault (core dumped)
Dear Scwatts, thanks for your tools,
I tried the fake data to exclude the issue of inputing data, the ram of my pc is 32 GB. So why it reported Segmentation fault (core dumped)

@scwatts
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scwatts commented Nov 8, 2024

Hi @1362996609zby, can you describe some additional details about our set up? e.g. operating system, CPU type, method of installation for fastspar, etc

Are you also able to confirm that the the input file /mnt/e/zby/jj/fastspar/fake_data.tsv and output directory /mnt/e/zby/jj/fastspar/output/bootstrap_counts/ exist?

@1362996609zby
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Of course, my system is win11 so i have to run it on WSL, and i installed fastspar by using command:
conda create -n fastspar_env
conda activate fastspar_env
conda install -c bioconda -c conda-forge fastspar
CPU: AMD Ryzen 9 8945HS w/ Radeon 780M Graphics 4.00 GHz
RAM:32.0 GB
Thanks for your reply!!

@1362996609zby
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The other commands are ok, it goes to bad when running fastspar_bootstrap

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