Some folders for external samples are not changed to the specified group
The possibility to set a specific group on files and folders created in the secondary analysis for external samples was introduced in #1174.
This functionality works by creating files and folders as normal with restricted access. In the final steps a 'chgrp' command is used to change files and folders to the specified group. A bug in this functionality causes some folders to be missed. This typically happens in the demux scripts which typically create a sub-folder within a folder and then only the sub-folder (and the files in it) get the correct group.
For example, prefix
NN has bee configured to
nngroup and we have a RNA sample with name
# Create directories 'ABC123' and 'lib.g' mkdir -p <...>/external/NN/ABC123/lib.g # Change group on the 'lib.g' chgrp -R nngroup <...>/external/NN/ABC123/lib.g
ABC123 directory is left with the default group. We need to add 'chgrp' command for it to (without the -R flag).
It is expected that the
NN directory already exists and that is has been configured by the server administrator.