Saving analyses to file v6
The following instructions work in the DataSHIELD test environment only.
Write a table to .csv
- use the
write.csv
orwrite.table
R functions to write tables to file
# output to the R console > ds.table(rvar='D$DIS_DIAB', cvar='D$GENDER') # prints into a file called test_table.csv in the current working directory > write.csv(x=ds.table(rvar='D$DIS_DIAB', cvar='D$GENDER'), file = "test_table.csv")
Write an image to .png, .pdf, .ps
In R it is possible to print sequential images on sequential pages.
- To do this an image writing function such as
png()
,pdf()
orpostscript()
needs to be opened. - Each file to be written must be put on seperate lines
- The print device needs closing.
- All images are written to the current working directory in R.
# a png example png(filename = "image_name.png", width = 900, height = 700, units = "px", pointsize = 12, bg = "white", type = "cairo") ds.histogram(x='D$LAB_HDL') dev.off()
- The pdf example prints the output of two seperate
ds.histogram
commands onto seperate pages. Each line is output to a seperate page in the pdf.
# a pdf example pdf(file = "image_name.pdf") ds.histogram(x='D$LAB_HDL') ds.histogram(x='D$LAB_HDL', type='split') dev.off()
# a postscript example postscript(file = "image_name.ps", paper = "special", width = 9, height = 7, onefile = TRUE, horizontal = FALSE) ds.histogram(x='D$LAB_HDL') ds.histogram(x='D$LAB_HDL', type='split') dev.off()
Write the R console screen to file
In some cases the non-disclosive data used to create an image may be required, this can be printed to file using the capture.output
R function:
# print to file the non-disclosive data that comprises a histogram out <- capture.output(ds.histogram(x='D$LAB_HDL')) cat(out, file="name.txt", sep="\n", append=TRUE)
All arguments to customise the above functions can be found in their respective function manual pages.
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