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Added genbank support #418

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d-cameron
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  • Added --source parameter to enable building against all of genbank instead of just refseq

    • very useful for HPV type classification as RefSeq does not have a HPV-45 exemplar genome assembly but an assembly exists in GenBank)
  • Fixed permissions error with human database

Fixed permissions error with human database
@d-cameron d-cameron changed the title Added genbank Added genbank support Feb 24, 2021
@xgnusr
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xgnusr commented Mar 12, 2021

how can I use this parameter?
tnx !!

@BenLangmead
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@DerrickWood This looks quite useful. Could you comment and/or merge, please?

@ifanlyn95
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I have already done it, please alter the libexec/download_genomic_library.sh and libexec/rsync_from_ncbi.pl with the following links.
Scaffold sequencing also was included. (if you don't need it, plz remove all the scaffolds by manual~, I believe you could do it)
And I also applied the aria2c and pigz to improve efficiency.

@ifanlyn95
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if you used my scripts, plz install the aria2c and pigz first~~

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4 participants