fluteRRA() error: URL 'https://s3-eu-west-1.amazonaws.com....Timeout of 60 seconds was reached
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Entering edit mode
6 weeks ago
leranwangcs ▴ 60

Hi,

When I ran MAGeCK function fluteRRA(), I kept getting below error message:

2021-10-19 16:14:31 # Create output dir and pdf file ...
2021-10-19 16:14:31 # Read RRA result ...
132 genes genes fail to convert into Entrez IDs: POTENTIALLY_ACTIVE_34, POTENTIALLY_ACTIVE_127, POTENTIALLY_ACTIVE_108, POTENTIALLY_ACTIVE_64, POTENTIALLY_ACTIVE_74, POTENTIALLY_ACTIVE_85, POTENTIALLY_ACTIVE_17, POTENTIALLY_ACTIVE_68, CAMTA2-AS1, POTENTIALLY_ACTIVE_104, POTENTIALLY_ACTIVE_76, POTENTIALLY_ACTIVE_71, POTENTIALLY_ACTIVE_131, POTENTIALLY_ACTIVE_5, POTENTIALLY_ACTIVE_135, POTENTIALLY_ACTIVE_20, POTENTIALLY_ACTIVE_30, POTENTIALLY_ACTIVE_40, POTENTIALLY_ACTIVE_46, POTENTIALLY_ACTIVE_99, POTENTIALLY_ACTIVE_50, POTENTIALLY_ACTIVE_75, POTENTIALLY_ACTIVE_137, POTENTIALLY_ACTIVE_60, POTENTIALLY_ACTIVE_37, POTENTIALLY_ACTIVE_52, POTENTIALLY_ACTIVE_13, POTENTIALLY_ACTIVE_129, POTENTIALLY_ACTIVE_82, POTENTIALLY_ACTIVE_48, POTENTIALLY_ACTIVE_55, POTENTIALLY_ACTIVE_80, POTENTIALLY_ACTIVE_133, POTENTIALLY_ACTIVE_70, RPH3AL-AS1, POTENTIALLY_ACTIVE_8, POTENTIALLY_ACTIVE_29, POTENTIALLY_ACTIVE_12, POTENTIALLY_ACTIVE_128, POTENTIALLY_ACTIVE_32, POTENTIALLY_ACTIVE_22, POTENTIALLY_ACTIVE_114,... <truncated>
URL 'https://s3-eu-west-1.amazonaws.com/pfigshare-u-files/20234073/Achilles_gene_effect.csv?X-Amz-Algorithm=AWS4-HMAC-SHA256&X-Amz-Expires=10&X-Amz-SignedHeaders=host&X-Amz-Signature=8f37b97719d147bcedb465c035a6b98cdc4af71169994ea852110c177f434559&X-Amz-Date=20211019T211435Z&X-Amz-Credential=AKIAIYCQYOYV5JSSROOA/20211019/eu-west-1/s3/aws4_request': Timeout of 60 seconds was reachedError in scan(file = file, what = what, sep = sep, quote = quote, dec = dec,  : 
  cannot read from connection

I couldn't understand what does it mean. Has anyone else seen this before?

Thanks! Leran

MAGeCK • 92 views
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