On 14/05/2019 16:58, Loris Bennett wrote:
Hi,
I just tried to do
eb R-bundle-Bioconductor-3.7-foss-2018b-R-3.5.1.eb --robot
This failed on the last of 134 packages with
ERROR: dependency ‘shinythemes’ is not available for package ‘GSVA’
The package 'shinythemes' is one which should be installed by
R-3.5.1-foss-2018b.eb
but as it turns out, of the 668 packages which should be installed, only
648 in fact are.
If some of the packages had failed to install, I would have expected the
whole thing to fail and the module file not to be generated, but in fact
it was.
Am I missing something here? How could I debug the issue?
You should double check whether the easyconfig file that was used for
the installation indeed had the missing extensions listed (see the
'easybuild/' subdirectory of your R installation, or the log file if you
feel comfortable navigating it).
As Lars already mentioned, we occasionally extend the list of
extensions, and you may have used an R easyconfig that didn't include
some extensions yet.
We do that because we know it's trivial to install missing extensions
using --skip, as Lars also mentioned, see
https://easybuild.readthedocs.io/en/latest/Partial_installations.html#installing-additional-extensions-using-k-skip
.
regards,
Kenneth
Cheers,
Loris
