Annotation Forge Error: makeOrgPackageFromNCBI
I just run a code inherited from a recent nature paper: github.com/RoundLab/Ost_CandidaRNASeq
However, I got a lot of errors with annotation forge. Would you please help me?
Yesterday, I had another error. Today I have rerun it, and I got another error. 🙁
library("biomaRt") library("GenomeInfoDb") library(AnnotationDbi) library(Biobase) library(AnnotationForge) library("GO.db") path1<-tcltk::tk_choose.dir(getwd(), "Choose the folder for Analysis") # A window will popup and ask you to select the folder containg the data setwd(path1) path1 makeOrgPackageFromNCBI(version = "0.1", author = "Trinh Phan-Canh <email@example.com>", maintainer = "Trinh Phan-Canh <firstname.lastname@example.org>", outputDir = "data", tax_id = "237561", genus = "Candida", species = "albicans") If files are not cached locally this may take awhile to assemble a 12 GB cache databse in the NCBIFilesDir directory. Subsequent calls to this function should be faster (seconds). The cache will try to rebuild once per day. preparing data from NCBI ... starting download for  gene2pubmed.gz  gene2accession.gz  gene2refseq.gz  gene_info.gz  gene2go.gz getting data for gene2pubmed.gz extracting data for our organism from : gene2pubmed getting data for gene2accession.gz extracting data for our organism from : gene2accession getting data for gene2refseq.gz extracting data for our organism from : gene2refseq getting data for gene_info.gz extracting data for our organism from : gene_info getting data for gene2go.gz extracting data for our organism from : gene2go processing gene2pubmed processing gene_info: chromosomes processing gene_info: description processing alias data processing refseq data processing accession data processing GO data Error in function (type, msg, asError = TRUE) : error:1407742E:SSL routines:SSL23_GET_SERVER_HELLO:tlsv1 alert protocol version
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