Hi everyone, Is there a problem in the current msa package installation? I did everything by the book.

> sessionInfo( )
R version 4.2.0 (2022-04-22)
Platform: x86_64-conda-linux-gnu (64-bit)
Running under: Ubuntu 22.04.1 LTS

Matrix products: default
BLAS/LAPACK: /home/ido/miniconda3/lib/libopenblasp-r0.3.21.so

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8  
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C      

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base    

loaded via a namespace (and not attached):
[1] BiocManager_1.30.20 compiler_4.2.0      tools_4.2.0

Thanks, Ido

Below are the relevant error messages from the output

mymain.c: In function 'ParseCommandLine':
mymain.c:565:34: error: 'PACKAGE_NAME' undeclared (first use in this function)
  565 |         printf("%s - %s (%s)\n", PACKAGE_NAME, PACKAGE_VERSION, PACKAGE_CODENAME);
      |                                  ^~~~~~~~~~~~
mymain.c:565:34: note: each undeclared identifier is reported only once for each function it appears in
mymain.c:565:48: error: 'PACKAGE_VERSION' undeclared (first use in this function)
  565 |         printf("%s - %s (%s)\n", PACKAGE_NAME, PACKAGE_VERSION, PACKAGE_CODENAME);
      |                                                ^~~~~~~~~~~~~~~
mymain.c:565:65: error: 'PACKAGE_CODENAME' undeclared (first use in this function)
  565 |         printf("%s - %s (%s)\n", PACKAGE_NAME, PACKAGE_VERSION, PACKAGE_CODENAME);
      |                                                                 ^~~~~~~~~~~~~~~~
mymain.c:610:43: error: 'PACKAGE' undeclared (first use in this function)
  610 |         arg_print_errors(stdout, opt_end, PACKAGE);
      |                                           ^~~~~~~
make[2]: *** [/home/ido/miniconda3/lib/R/etc/Makeconf:170: mymain.o] Error 1
make[2]: Leaving directory '/tmp/RtmpdwMi6o/R.INSTALL3c7fb81f9ea6c0/msa/src/ClustalOmega/src'
make[1]: *** [msaMakefile:48: clustalomega] Error 1
make[1]: Leaving directory '/tmp/RtmpdwMi6o/R.INSTALL3c7fb81f9ea6c0/msa/src/ClustalOmega'
make: *** [Makevars:36: build_clustalomega] Error 2
ERROR: compilation failed for package 'msa'
* removing '/home/ido/miniconda3/lib/R/library/msa'

The downloaded source packages are in
        '/tmp/RtmpHO4Mkq/downloaded_packages'
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done
Warning message:
In install.packages(...) :
  installation of package 'msa' had non-zero exit status