Error with rafah : libnsl.so.1

[Fabien Delapierre]

I’m running into this rafah error when running the pipeline (from bioconda : 1.3.2)

In the rafah log:

perl: error while loading shared libraries: libnsl.so.1: cannot open shared object file: No such file or directory

[Simon Roux]

Unfortunately this happened to other users without a clear solution yet: https://bitbucket.org/srouxjgi/iphop/issues/41/filenotfounderror-errno-2-no-such-file-or

Can you check that “libnsl” is indeed installed in the conda environment ? (“conda list -n iphop_env”). If so, then it’s most likely a question of perl not pointing to the right library. One way to check this is to load the conda environment, and then try to run the command that is listed in “rafah.cmd” from the command line. If it still fails with the same error, then we will need to check which “perl” is called (i.e. “which perl”, is it pointing to the perl version in the conda environment), and where the library path from this perl is pointing to.