[Debian-med-packaging] C++ help needed with new version of phyml

[Andreas Tille]

Hi,

I'd like to package the latest version of phyml[1].  Unfortunately I get

...
gcc  -I. -I..   -Wdate-time -D_FORTIFY_SOURCE=2  -std=c99 -O2 -fomit-frame-pointer -funroll-loops -Wall -Winline -march=native -I/usr/include/libhmsbeagle-1 -lhmsbeagle -ldl -c -o lk.o lk.c
utilities.c: In function 'K80_dist':
utilities.c:2108:7: warning: unused variable 'temp' [-Wunused-variable]
   int temp;
       ^~~~
lk.c: In function 'Lk':
lk.c:435:22: warning: unused variable 'npatterns' [-Wunused-variable]
   const unsigned int npatterns = tree->n_pattern;
                      ^~~~~~~~~
lk.c:434:22: warning: unused variable 'ncatg' [-Wunused-variable]
   const unsigned int ncatg = tree->mod->ras->n_catg;
                      ^~~~~
lk.c:433:22: warning: unused variable 'ns' [-Wunused-variable]
   const unsigned int ns = tree->mod->ns;
                      ^~
lk.c:432:21: warning: variable 'dot_prod' set but not used [-Wunused-but-set-variable]
   phydbl len,*expl,*dot_prod;
                     ^~~~~~~~
lk.c:432:15: warning: variable 'expl' set but not used [-Wunused-but-set-variable]
   phydbl len,*expl,*dot_prod;
               ^~~~
lk.c:432:10: warning: unused variable 'len' [-Wunused-variable]
   phydbl len,*expl,*dot_prod;
          ^~~
lk.c:431:46: warning: unused variable 'site' [-Wunused-variable]
   unsigned int br,catg,state,ambiguity_check,site;
                                              ^~~~
lk.c:431:30: warning: unused variable 'ambiguity_check' [-Wunused-variable]
   unsigned int br,catg,state,ambiguity_check,site;
                              ^~~~~~~~~~~~~~~
lk.c:431:24: warning: unused variable 'state' [-Wunused-variable]
   unsigned int br,catg,state,ambiguity_check,site;
                        ^~~~~
lk.c:431:19: warning: unused variable 'catg' [-Wunused-variable]
   unsigned int br,catg,state,ambiguity_check,site;
                   ^~~~
lk.c: In function 'Update_PMat_At_Given_Edge':
lk.c:2263:31: error: invalid initializer
       int p_matrices[1]     = b_fcus->Pij_rr_idx;
                               ^~~~~~
lk.c:2264:31: error: invalid initializer
       double branch_lens[1] = len;
                               ^~~
Makefile:1682: recipe for target 'lk.o' failed
make[4]: *** [lk.o] Error 1
make[4]: *** Waiting for unfinished jobs....
...

when trying to build the latest status in Git.  Any hint how to solve
this?

Kind regards

       Andreas.

[1] https://anonscm.debian.org/git/debian-med/phyml.git

-- 
http://fam-tille.de