cannot open URL error while running FluteRRA()

[Leran10]

Hi,

I was trying to use FluteRRA() function based on Mageck tutorial here: https://www.bioconductor.org/packages/devel/bioc/vignettes/MAGeCKFlute/inst/doc/MAGeCKFlute.html

My code is for this function is: FluteRRA(file1, proj="Dannielle", organism="hsa", outdir = "./")

But I got error message says:

URL 'https://s3-eu-west-1.amazonaws.com/pfigshare-u-files/20234073/Achilles_gene_effect.csv?X-Amz-Algorithm=AWS4-HMAC-SHA256&X-Amz-Credential=AKIAIYCQYOYV5JSSROOA/20220725/eu-west-1/s3/aws4_request&X-Amz-Date=20220725T165124Z&X-Amz-Expires=10&X-Amz-SignedHeaders=host&X-Amz-Signature=67c8ea4125a15a270d8ed097eea17f83733a0323f68f64136060015934d5fab6': Timeout of 300 seconds was reachedError in scan(file = file, what = what, sep = sep, quote = quote, dec = dec,  : 
  cannot read from connection

I'm not sure what can be the reason that caused this issue and wondered if I can get some help on this?

Thanks! Leran

[jjblack91]

I am getting a similar error when trying to run the OmitCommonEssential function. My code is: df_cas9_gene_omit <- OmitCommonEssential(df_cas9_gene, symbol = "HumanGene")

The error says:

Warning: URL 'https://s3-eu-west-1.amazonaws.com/pfigshare-u-files/20234073/Achilles_gene_effect.csv?X-Amz-Algorithm=AWS4-HMAC-SHA256&X-Amz-Credential=AKIAIYCQYOYV5JSSROOA/20220801/eu-west-1/s3/aws4_request&X-Amz-Date=20220801T205724Z&X-Amz-Expires=10&X-Amz-SignedHeaders=host&X-Amz-Signature=f4a3f30e025bd87a62ef5a67dbfc5740a451c3b4b80f6ae4dcb6969b67f88d4c': Timeout of 60 seconds was reachedError in scan(file = file, what = what, sep = sep, quote = quote, dec = dec, : cannot read from connection

I am also unsure of what to do here. I am suspecting an issue with some cloud-based webserver?