Comments (2)
mourisl
commented on August 20, 2024
Could you please share the assembly_summary.txt in your downloaded folder created by Centrifuge?
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bash-idr
commented on August 20, 2024
Hi. I have the same issue when i'm trying this command :
$ centrifuge-download -o library -m -d "viral" refseq > seqid2taxid.map
as output i've got :
Error downloading https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/029/888/005/GCF_029888005.1_ASM2988800v1
na/GCF_029888005.1_AS
assembly_summary.txt
M2988800v1 na_genomic.fna.gz!
basename: extra operand ‘na_genomic.fna.gz’
Try 'basename --help' for more information.
assembly_summary.txt
$ centrifuge --version
centrifuge-class version 1.0.4
64-bit
Built on default-03141e47-51ec-4b49-bdf0-46eb46c89ddb
Wed Jul 4 15:01:13 UTC 2018
Compiler: gcc version 4.8.2 20140120 (Red Hat 4.8.2-15) (GCC)
Options: -O3 -m64 -msse2 -funroll-loops -g3 -std=c++11 -DPOPCNT_CAPABILITY
Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}
I upload also the assembly_summary.txt.
Any help will save my life.
Thanks!
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