Private Downloadsdrako Stud

2021年2月28日
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Question: How To Download All Sra Samples At Once ?
Energy Efficient Hot Air Dryer Size: 204.16 KB. Dehumidified Air Dryer Size: 3.03 MB. Dosing Mixing Conveying System Size: 754.35 KB. Dear Biostars, As you may know SRA is a repository for all types of sequencing data. I often times have to do manual download by copying links of every SRA dataset by hand and use wget.136.9 years ago bySpain
Dear Biostars,
As you may know SRA is a repository for all types of sequencing data. I often times have to do manual download by copying links of every SRA dataset by hand and use wget. I am wondering is there any simplest approach than manual copying of links ? Thanx in advance
For ex: How can I download all the data related to SRP026197 ? http://www.ncbi.nlm.nih.gov/sra?term=SRP026197ADD COMMENT • link • modified 2.6 years ago by Federico Giorgi • 630 • written 6.9 years ago by biorepine • 1.5k1
Have you tried the SRAdb package from bioconductor? It’s been a while, but I think it can be used to do that sort of thing.ADD REPLY • link written 6.9 years ago by Devon Ryan ♦ 98kPrivate Downloadsdrako Students
Actually, SRA is the repository for sequence data, not GEO. There are links between the two databases, but your question is actually related to SRA.ADD REPLY • link written 6.9 years ago by Sean Davis ♦ 26k
oh yeah you are right. I will edit my question. thanxADD REPLY • link written 6.9 years ago by biorepine • 1.5k
here is another solution A: How to download raw sequence data from GEO/SRAADD REPLY • link written 6.3 years ago by Istvan Albert ♦♦ 86k
when I run the code on my computer,I have a problem below,what is wrong?Private Downloadsdrako Studio
library(SRAdb)Private Downloadsdrako Student
srafile=getSRAdbFile()Private Downloadsdrako Studios
trying URL ’http://gbnci.abcc.ncifcrf.gov/backup/SRAmetadb.sqlite.gz’Content type ’application/x-gzip’ length 1308358823 bytes (1247.7 Mb)opened URLdownloaded 1247.7 Mb
Unzipping...
Error in .local(drv, ...) : Could not connect to database:unable to open database fileADD REPLY • link modified 4.8 years ago • written 4.8 years ago by Ada • 0
Perhaps you ran out of space in /tmp or the equivalent. Anyway, please post things like this as new questions.ADD REPLY • link modified 4.8 years ago • written 4.8 years ago by Devon Ryan ♦ 98k
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