Installation in Debian Bookworm Fails

[DarioS]

Error.

[100%] Linking CXX static library libigraph.a
[100%] Built target igraph
[100%] Building C object tests/CMakeFiles/test_utilities.dir/unit/test_utilities.c.o
[100%] Built target test_utilities
** libs
using C++ compiler: ‘g++ (Debian 12.2.0-14) 12.2.0’
    ...        ...
/dski/dev/assorthead/include/scran_graph_cluster/build_snn_graph.hpp:167:38: error: ‘nthreads’ was not declared in
this scope; did you mean ‘pthread_t’?
  167 |     #pragma omp parallel num_threads(nthreads)
      |                                      ^~~~~~~~
      |                                      pthread_t
make: *** [/usr/lib/R/etc/Makeconf:204: build_snn_graph.o] Error 1
ERROR: compilation failed for package ‘scrapper’

[LTLA]

You'll need the HEAD on https://github.com/LTLA/assorthead.

[DarioS]

Thanks for the idea. But, I already have the latest commit.

> devtools::install_github("LTLA/assorthead")
Skipping install of 'assorthead' from a github remote, the SHA1 (601dc4fe) has not changed since last install.
  Use `force = TRUE` to force installation

[LTLA]

oops, try again now.

[DarioS]

It is failing again.

correct_mnn.cpp:5:10: fatal error: BiocNeighbors.h: No such file or directory
    5 | #include "BiocNeighbors.h"
      |          ^~~~~~~~~~~~~~~~~
compilation terminated.
make: *** [/usr/lib/R/etc/Makeconf:204: correct_mnn.o] Error 1
ERROR: compilation failed for package ‘scrapper’
* removing ‘/dski/nobackup/dario/dev/scrapper’
* restoring previous ‘/dski/nobackup/dario/dev/scrapper’

[LTLA]

You're going to need knncolle/BiocNeighbors#25.