This is a collections of tools used to upload data into DataSHIELD backends. It aids data mangers in the initial stages of uploading data to DataSHIELD backends.


Please check uploading to DataSHIELD guide

For detailled function descrptions, please check: references and above.


Please check the troubleshooting guide.

Adding new variables

Please check: adding new variables

Armadillo 3

dsUpload Version 5.x.x is compatible with Armadillo 3. You should be able to install dsUpload without specifying any additional versions. To install dsUpload, you have to install devtools first:


Then you will be able to install the newest version of dsUpload:


Armadillo 2

dsUpload Version 4.7.x is compatible with Armadillo 2. When installing this version of dsUpload, the install.packages command might install the newest version (incompatible) of MolgenisArmadillo. Run these commands (Rstudio) to install the correct version of MolgenisArmadillo:

Install devtools:


Load devtools and install ds-upload 4.7.1


You might get the following error message:

namespace ‘MolgenisArmadillo’ 2.0.0 is being loaded, but == 1.1.3 is required

To fix this you need to remove the incompatible version of MolgenisArmadillo:


You might have to install these additional packages:

install.packages(c("aws.iam", "aws.s3"))

Next we install a previous version of MolgenisArmadillo 1.1.3:

packageurl <- ""
install.packages(packageurl, repos=NULL, type="source")

Now we (again) install dsUpload 4.7.1:


Make sure you do NOT update MolgenisArmadillo to another version then 1.1.3, if prompted, select option 3

Downloading GitHub repo lifecycle-project/ds-upload@4.7.1
These packages have more recent versions available.
It is recommended to update all of them.
Which would you like to update?

1: All                                 
2: CRAN packages only                  
3: None                                
4: MolgenisA... (1.1.3 -> 2.0.0) [CRAN]

Enter one or more numbers, or an empty line to skip updates: 3

After that you should be able to load dsUpload without any problems.

If you are asked to update MolgenisArmadillo to version 2.0.x please skip, this in order for dsUpload 4.7.x to work with Armadillo 2.