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download_reference.sh is outdated #54

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moranr7 opened this issue Oct 3, 2019 · 3 comments
Closed

download_reference.sh is outdated #54

moranr7 opened this issue Oct 3, 2019 · 3 comments

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@moranr7
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moranr7 commented Oct 3, 2019

Hey,

The $remote FTP site seems to have changed for build 38 to :
ftp://ftp.ncbi.nlm.nih.gov/genomes/Homo_sapiens/Assembled_chromosomes/GCF_000001405.39_GRCh38.p13_assembly_structure/Primary_Assembly/assembled_chromosomes/FASTA/
@tedyun
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tedyun commented Dec 4, 2019

I think it should be this one (the above link is also down):

ftp://ftp.ncbi.nlm.nih.gov/genomes/Homo_sapiens/current/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_assembly_structure/Primary_Assembly/assembled_chromosomes/FASTA/

@tedyun
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tedyun commented Dec 4, 2019

Or this: ftp://ftp.ncbi.nlm.nih.gov/genomes/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.109/Assembled_chromosomes/seq/

@jjzieve jjzieve mentioned this issue Jan 14, 2020
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@jjzieve
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jjzieve commented Jan 16, 2020

Thanks for the info @tedyun! Should be fixed with PR #39

@jjzieve jjzieve closed this as completed Jan 16, 2020
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@tedyun @jjzieve @moranr7