search

shenlab-sinai / ngsplot

Quick mining and visualization of NGS data by integrating genomic databases
Other
252 stars 65 forks source link

'Deprecated' Error with ngs.plot.r after sys admin update Bioconductor #46

Open december95 opened 9 years ago

december95 commented 9 years ago 
Loading R libraries.....Done
Configuring variables...
Using database:
/home/yensin/software/ngsplot/database/hg19/hg19.ensembl.genebody.protein_coding.RData
Done
Analyze bam files and calculate coverageWarning message:
'isNotPrimaryRead' is deprecated.
Use 'isSecondaryAlignment' instead.
See help("Deprecated") 
..........................................................................................................................................................................................................Done
Plotting figures...Error in seq.default(min.e, max.e, length.out = ncolor + 1) : 
  'from' cannot be NA, NaN or infinite
Calls: plotheat -> ColorBreaks -> seq -> seq.default
Execution halted

I have the above error the last 2 days since my system admin updated R or bioconductor. What is the solution? I tried to redownload the most updated 2.47.1 ngs.plot.r but could not download .zip completely or git clone error.

Thanks for advice YS