error in champ.norm, Error in serialize(data, node$con) : error writing to connection

Question

[924861370]

I run R package champ. There is an error, when normalized data. I don't know what's wrong. Tian The R code is as follow:

myNorm <- champ.norm(beta=myLoad$beta,
                     arraytype="EPIC",
                     method="BMIQ",
                     cores=20,
                     plotBMIQ=TRUE,
                     resultsDir="/home/user/guoyu/methylation/2.preprocess_result/normalization")

[===========================]


[>>>>> ChAMP.NORM START <<<<<<]
-----------------------------
champ.norm Results will be saved in /home/user/guoyu/methylation/2.preprocess_result/normalization
[ SWAN method call for BOTH rgSet and mset input, FunctionalNormalization call for rgset only , while PBC and BMIQ only needs beta value. Please set parameter correctly. ]

<< Normalizing data with BMIQ Method >>
Note that,BMIQ function may fail for bad quality samples (Samples did not even show beta distribution).
20 cores will be used to do parallel BMIQ computing.

Error in serialize(data, node$con) : error writing to connection

[Kevin Blighe]

Cross-posted: https://support.bioconductor.org/p/9139843/#9139843

Answer 1

[Tian]

Sorry I just see this, I normally only answer email for questions.

According to your error, it does not looks like code problem more likely to be your company/server issue. Like connection, or disk writing.