Commit f651163a authored by joerg.buescher's avatar joerg.buescher
Browse files

Merge branch 'dev' into 'master'

successful test run prediction and training

See merge request !6
parents 0ff4ae31 24f67a24
No preview for this file type
......@@ -25,5 +25,6 @@ Imports:
mzR (>= 2.20.0),
nnls (>= 1.4),
openxlsx (>= 4.1.4),
randomForest (>= 4.6-14),
robustbase(>= 0.93-6),
zoo (>= 1.8-7)
\ No newline at end of file
......@@ -186,20 +186,25 @@ print('passed git check')
# for documentation purposes append session info to log. do this at the end because it's a messy read.
cat(as.character(sessionInfo()), file=prm$log_con)
# Call sample postprocessing if in pipeline mode
if (!(as.character(Sys.info()[["user"]]) == 'rstudio')){
rm(list = ls()) # empty workspace to avoid out of memory options
gc()
# system("chmod 777 overviewheatmap.pdf", intern=FALSE, wait=FALSE)
system("python3 /code/msweb/metabolomics/help/sample_postprocessing.py", intern=FALSE, wait=FALSE)
}
# cat('\nSettings overview: \n')
# cat(as.character(prm),file=prm$log_con)
print ('qqq_auto_integrate complete.')
tryCatch({
# Call sample postprocessing if in pipeline mode
if (!(as.character(Sys.info()[["user"]]) == 'rstudio')){
rm(list = ls()) # empty workspace to avoid out of memory options
gc()
# system("chmod 777 overviewheatmap.pdf", intern=FALSE, wait=FALSE)
system("python3 /code/msweb/metabolomics/help/sample_postprocessing.py", intern=FALSE, wait=FALSE)
}
# cat('\nSettings overview: \n')
# cat(as.character(prm),file=prm$log_con)
print ('qqq_auto_integrate complete.')
# tidy up
setwd(originalwd)
par(pardefault)
# tidy up
setwd(originalwd)
par(pardefault)
}, error = function(err) {
# if tidying up doesn't work, well too bad.
})
} # endfunction
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment