Failed to install package and call it from R

[julienvibert]

Hello,

I am having trouble trying to install the package and calling it from R, here is my issue:

I am using the following commands to install (in bold, the rest is my computer output):

(base) julien@julien-Precision-7920-Tower:~$ git clone https://github.com/andrelmartins/TwoBit.git
Clonage dans 'TwoBit'...
remote: Enumerating objects: 236, done.
remote: Total 236 (delta 0), reused 0 (delta 0), pack-reused 236
Réception d'objets: 100% (236/236), 44.32 KiB | 0 bytes/s, fait.
Résolution des deltas: 100% (111/111), fait.
Vérification de la connectivité... fait.

(base) julien@julien-Precision-7920-Tower:~$ cd TwoBit/

(base) julien@julien-Precision-7920-Tower:~/TwoBit$ make
gcc -o twoBitFreq -Wall -g main_freq.c twobit.c
gcc -o test -Wall -g main.c twobit.c
gcc -o twobit.so -shared twobit.c -fPIC

Up to here there is no error message but it seems the R package was not built so I followed the advice from this post: #1 (adding "twoBit.pkg" to the first line of the Makefile). Here I retry to "make" the file with this change:

(base) julien@julien-Precision-7920-Tower:~/TwoBit$ make
rm -Rf pkg.roxygen
(R CMD roxygen pkg)||(./Roxygen pkg)
/usr/lib/R/bin/Rcmd: 62: exec: roxygen: not found
First time using roxygen2. Upgrading automatically...
Updating roxygen version in /home/julien/TwoBit/pkg.roxygen/DESCRIPTION
Loading twoBit
Re-compiling twoBit
─ installing source package ‘twoBit’ ...
make[1] : on entre dans le répertoire « /home/julien/TwoBit/pkg.roxygen/src »
rm -f *.o *.so
make[1] : on quitte le répertoire « /home/julien/TwoBit/pkg.roxygen/src »
ERROR: a 'NAMESPACE' file is required
─ removing ‘/tmp/Rtmp8NVmgt/devtools_install_47ef2e2f56d8/twoBit’
Error in (function (command = NULL, args = character(), error_on_status = TRUE, :
System command error
Calls: roxygenize ... eval -> with_envvar -> force -> do.call ->
De plus : Warning message:
roxygen2 requires Encoding: UTF-8
Exécution arrêtée
Makefile:13 : la recette pour la cible « twoBit.pkg » a échouée
make: *** [twoBit.pkg] Erreur 1

It seems that I have to make roxygen2 require UTF-8 so I add "Encoding: UTF-8" to the DESCRIPTION file in "pkg". Here I try again with this change:

(base) julien@julien-Precision-7920-Tower:~/TwoBit$ make
rm -Rf pkg.roxygen
(R CMD roxygen pkg)||(./Roxygen pkg)
/usr/lib/R/bin/Rcmd: 62: exec: roxygen: not found
First time using roxygen2. Upgrading automatically...
Updating roxygen version in /home/julien/TwoBit/pkg.roxygen/DESCRIPTION
Loading twoBit
Re-compiling twoBit
─ installing source package ‘twoBit’ ...
make[1] : on entre dans le répertoire « /home/julien/TwoBit/pkg.roxygen/src »
rm -f *.o *.so
make[1] : on quitte le répertoire « /home/julien/TwoBit/pkg.roxygen/src »
ERROR: a 'NAMESPACE' file is required
─ removing ‘/tmp/RtmpWd1dkj/devtools_install_48d174b82b77/twoBit’
Error in (function (command = NULL, args = character(), error_on_status = TRUE, :
System command error
Calls: roxygenize ... eval -> with_envvar -> force -> do.call ->
Exécution arrêtée
Makefile:13 : la recette pour la cible « twoBit.pkg » a échouée
make: *** [twoBit.pkg] Erreur 1

So finally it doesn't seem to be an issue with UTF-8 encoding but I don't see where the problem is coming from... And I cannot call the package from R.

Thanks a lot for your help!

Best,

Julien