error in summary_ustacks about stackr

[thierrygosselin]

Try this and tell me if you still get an error:

library(stackr)
setwd("YOUR WORKING DIRECTORY")
test1 <- stackr::summary_ustacks(
  ustacks.folder = "./denovo_M1", 
  parallel.core = 1, 
  verbose = TRUE
  )

Depending if this work you could increase the number of core used.
The other problem I see is that you're using the same value for the argument ustacks.folder and the filename. In this case filename is pointing towards a directory not the actual name you want...

[crisale84]

Hi Thierry, now I have this message:

test1 <- stackr::summary_ustacks(

• ustacks.folder = "./denovo_M1",
• parallel.core = 1,
• verbose = TRUE
• )
  #######################################################################
  ##################### stackr::summary_ustacks #########################
  #######################################################################
  Removing these catalog files from the summary:
  catalog.alleles.tsv.gz
  catalog.calls
  catalog.fa.gz
  catalog.snps.tsv.gz
  catalog.tags.tsv.gz
  Summarizing 8 ustacks (snps, tags, alleles) files...

Summarizing information...
Error in .setMaxGlobalSize(max.vector.size) :
could not find function ".setMaxGlobalSize"

[thierrygosselin]

Read this to fix this issue with R

Feel free to re-open this issue if you still have a problem