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Problem with download reference genome from PanPhlAn pangenome database #40

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shiangchiet opened this issue Nov 8, 2023 · 0 comments

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@shiangchiet
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Hi,

Thank you for developing this great tool!
I am using python 3.9.18 and trying to download reference genomes for a few species from PanPhlAn pangenome database following the Tutorial-3_0 (https://github.com/SegataLab/panphlan/wiki/Tutorial-3_0).

These are 8 bacteria I need and I was trying to download them with the following script. However, the process kept terminated during the "Extracting archive" step, as per the screenshot attached below

panphlan_download_pangenome.py -i Lactobacillus_plantarum
panphlan_download_pangenome.py -i Bifidobacterium_longum
panphlan_download_pangenome.py -i Bifidobacterium_animalis
panphlan_download_pangenome.py -i Bifidobacterium_breve
panphlan_download_pangenome.py -i Lactobacillus_rhamnosus
panphlan_download_pangenome.py -i Lactobacillus_paracasei
panphlan_download_pangenome.py -i Lactobacillus_reuteri
panphlan_download_pangenome.py -i Streptococcus_thermophilus

panphlan error

Would you please advise what would be the possible cause of this problem and how can I go about it?

Thank you in advance!

Regards,
SC

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