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Attaching package: ‘BiocGenerics’

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    order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
    rbind, Reduce, rownames, sapply, setdiff, sort, table, tapply,
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Attaching package: ‘S4Vectors’

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Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

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Attaching package: ‘Matrix’

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Attaching package: ‘data.table’

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Setting SC3 parameters...
Your dataset contains more than 2000 cells. Adjusting the nstart parameter of kmeans to 50 for faster performance...
Defining training cells for SVM using 5000 random cells...
Calculating distances between the cells...
Loading required package: SC3
Loading required package: SC3
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loaded SC3 and set parent environment
loaded SC3 and set parent environment
loaded SC3 and set parent environment
Loading required package: foreach
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Loading required package: rngtools
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Performing transformations and calculating eigenvectors...
Loading required package: SC3
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loaded SC3 and set parent environment
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loaded SC3 and set parent environment
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loaded SC3 and set parent environment
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loaded SC3 and set parent environment
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loaded SC3 and set parent environment
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loaded SC3 and set parent environment
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Performing k-means clustering...
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loaded SC3 and set parent environment
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Calculating consensus matrix...
There were 35 warnings (use warnings() to see them)
There were 36 warnings (use warnings() to see them)
There were 50 or more warnings (use warnings() to see the first 50)
There were 32 warnings (use warnings() to see them)
There were 34 warnings (use warnings() to see them)
There were 19 warnings (use warnings() to see them)There were 31 warnings (use warnings() to see them)
There were 24 warnings (use warnings() to see them)There were 35 warnings (use warnings() to see them)
There were 26 warnings (use warnings() to see them)


Loading required package: SC3
loaded SC3 and set parent environment
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Calculating biology...
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loaded SC3 and set parent environment
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loaded SC3 and set parent environment
Loading required package: foreach
Loading required package: rngtools
Error in `[.default`(clusts, , paste0("sc3_", hash.table[i, 1], "_clusters")) : 
  incorrect number of dimensions
Error in `[.default`(clusts, , paste0("sc3_", hash.table[i, 1], "_clusters")) : 
  incorrect number of dimensions
Error in `[.default`(clusts, , paste0("sc3_", hash.table[i, 1], "_clusters")) : 
  incorrect number of dimensions
Error in checkForRemoteErrors(val) : 
  3 nodes produced errors; first error: Error in `[.default`(clusts, , paste0("sc3_", hash.table[i, 1], "_clusters")) : 
  incorrect number of dimensions
Calls: sc3 ... clusterApplyLB -> dynamicClusterApply -> checkForRemoteErrors
In addition: Warning message:
'isSpike' is deprecated.
See help("Deprecated") 
Execution halted
Error in unserialize(node$con) : error reading from connection
Calls: <Anonymous> ... doTryCatch -> recvData -> recvData.SOCKnode -> unserialize
Execution halted
Error in unserialize(node$con) : error reading from connection
Calls: <Anonymous> ... doTryCatch -> recvData -> recvData.SOCKnode -> unserialize
Execution halted
Error in unserialize(node$con) : error reading from connection
Calls: <Anonymous> ... doTryCatch -> recvData -> recvData.SOCKnode -> unserialize
Execution halted
