Network Export error and TOM object save error
0
0
Entering edit mode
m.azhar ▴ 10
@mazhar-12584
Last seen 6.9 years ago

HI 

I have tried a matrix of 62103 62103 dimension to calclulate TOM on ssh server 32 bit connection to linux baser server using R WGCNA package but It took 3.5 hours to calculate any how after that i wanted to save this object so that if the connection is disconneted or R is terminated i can reload it from R.data file but i feel this error

1. > save(TOM, file="mat1.rda", compress="xz")
Error in save(TOM, file = "mat1.rda", compress = "xz") : fwrite error
Error in close.connection(con) : fwrite error

 

2. I wanted to export this obejct as network file but i face this error 

vis=exportNetworkToVisANT(modTOM, file=paste( "VisANTInput-", module, ".txt", Warning messages:TRUE, threshold=0)
1: In max(abs(adjMat - t(adjMat)), na.rm = TRUE) :
  no non-missing arguments to max; returning -Inf
2: In min(adjMat, na.rm = TRUE) :
  no non-missing arguments to min; returning Inf
3: In max(adjMat, na.rm = TRUE) :
  no non-missing arguments to max; returning -Inf
4: In matrix(c(1:nRow), nRow, nRow, byrow = TRUE) :
  data length exceeds size of matrix
5: In matrix(c(1:nRow), nRow, nRow) : data length exceeds size of matrix

 

what is the better solution, Thanks for advice and suggestion in advance 

rnaseq • 803 views
ADD COMMENT

Login before adding your answer.

Traffic: 666 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6