Please would you advise on Monocle3 :

it has been working well on our HPC cluster until to a moment when we have restarted the interactive srun jobs on the HPC cluster :

and I am getting the error about spdata package: obviously, I have installed all the dependencies, and the error persists.

Could I use Monocle3 without using spdata package ? Any suggestions ?

geos_methods.cpp: In member function ‘std::vector<double> SpatVector::clearance()’:
geos_methods.cpp:1602:21: error: ‘GEOSMinimumClearanceLine_r’ was not declared in this scope
 1602 |   GEOSGeometry* w = GEOSMinimumClearanceLine_r(hGEOSCtxt, g[i].get());
      |                     ^~~~~~~~~~~~~~~~~~~~~~~~~~
make: *** [geos_methods.o] Error 1
ERROR: compilation failed for package ‘terra’
* removing ‘/home/btanasa/.R/terra’
ERROR: dependency ‘terra’ is not available for package ‘raster’
* removing ‘/home/btanasa/.R/raster’
ERROR: dependency ‘raster’ is not available for package ‘spData’
* removing ‘/home/btanasa/.R/spData’
ERROR: dependency ‘spData’ is not available for package ‘spatialreg’
* removing ‘/home/btanasa/.R/spatialreg’
The downloaded source packages are in
  ‘/local/scratch/btanasa/slrmtmp.28511097/Rtmp2S7dNY/downloaded_packages’
Warning messages:
1: In install.packages("spData", dependencies = TRUE) :
  installation of package ‘terra’ had non-zero exit status
2: In install.packages("spData", dependencies = TRUE) :
  installation of package ‘raster’ had non-zero exit status
3: In install.packages("spData", dependencies = TRUE) :
  installation of package ‘spData’ had non-zero exit status
4: In install.packages("spData", dependencies = TRUE) :
  installation of package ‘spatialreg’ had non-zero exit status
> knn_test_res <- graph_test(cds,  neighbor_graph="knn", cores=7)
Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : 
  there is no package called ‘spData 

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