[Debian-med-packaging] Bug#1096607: fasta3: ftbfs with GCC-15

[Matthias Klose]

Package: src:fasta3
Version: 36.3.8i.14-Nov-2020-3
Severity: important
Tags: sid forky
User: debian-gcc at lists.debian.org
Usertags: ftbfs-gcc-15

[This bug is NOT targeted to the upcoming trixie release]

Please keep this issue open in the bug tracker for the package it
was filed for.  If a fix in another package is required, please
file a bug for the other package (or clone), and add a block in this
package. Please keep the issue open until the package can be built in
a follow-up test rebuild.

The package fails to build in a test rebuild on at least amd64 with
gcc-15/g++-15, but succeeds to build with gcc-14/g++-14. The
severity of this report will be raised before the forky release.

The full build log can be found at:
http://qa-logs.debian.net/2025/02/16/amd64exp/fasta3_36.3.8i.14-Nov-2020-3_unstable_gccexp.log.gz
The last lines of the build log are at the end of this report.

To build with GCC 15, either set CC=gcc-15 CXX=g++-15 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.

  apt-get -t=experimental install g++ 

GCC 15 now defaults to the C23/C++23 standards, exposing many FTBFS.
Other Common build failures are new warnings resulting in build failures
with -Werror turned on, or new/dropped symbols in Debian symbols files.
For other C/C++ related build failures see the porting guide at
http://gcc.gnu.org/gcc-15/porting_to.html

[...]
      |     ^~~~~~~~
mmgetaa.c:619:1: error: conflicting types for ‘aranlibm’; have ‘void(char *, int,  fseek_t,  char *, struct lmf_str *)’ {aka ‘void(char *, int,  long int,  char *, struct lmf_str *)’}
  619 | aranlibm(char *str,
      | ^~~~~~~~
mmgetaa.c:84:22: note: previous declaration of ‘aranlibm’ with type ‘void(void)’
   84 | int agetlibm(); void aranlibm();
      |                      ^~~~~~~~
mmgetaa.c:727:1: error: conflicting types for ‘vranlibm’; have ‘void(char *, int,  fseek_t,  char *, struct lmf_str *)’ {aka ‘void(char *, int,  long int,  char *, struct lmf_str *)’}
  727 | vranlibm(char *str,
      | ^~~~~~~~
mmgetaa.c:86:6: note: previous declaration of ‘vranlibm’ with type ‘void(void)’
   86 | void vranlibm();
      |      ^~~~~~~~
mmgetaa.c:776:1: error: conflicting types for ‘gcg_getlibm’; have ‘int(unsigned char *, int,  char *, int,  fseek_t *, int *, struct lmf_str *, long int *)’ {aka ‘int(unsigned char *, int,  char *, int,  long int *, int *, struct lmf_str *, long int *)’}
  776 | gcg_getlibm(unsigned char *seq,
      | ^~~~~~~~~~~
mmgetaa.c:87:5: note: previous declaration of ‘gcg_getlibm’ with type ‘int(void)’
   87 | int gcg_getlibm();
      |     ^~~~~~~~~~~
mmgetaa.c:914:1: error: conflicting types for ‘lgetlibm’; have ‘int(unsigned char *, int,  char *, int,  fseek_t *, int *, struct lmf_str *, long int *)’ {aka ‘int(unsigned char *, int,  char *, int,  long int *, int *, struct lmf_str *, long int *)’}
  914 | lgetlibm(unsigned char *seq,
      | ^~~~~~~~
mmgetaa.c:85:5: note: previous declaration of ‘lgetlibm’ with type ‘int(void)’
   85 | int lgetlibm(); void lranlibm();
      |     ^~~~~~~~
mmgetaa.c:1050:1: error: conflicting types for ‘lranlibm’; have ‘void(char *, int,  fseek_t,  char *, struct lmf_str *)’ {aka ‘void(char *, int,  long int,  char *, struct lmf_str *)’}
 1050 | lranlibm(char *str,
      | ^~~~~~~~
mmgetaa.c:85:22: note: previous declaration of ‘lranlibm’ with type ‘void(void)’
   85 | int lgetlibm(); void lranlibm();
      |                      ^~~~~~~~
mmgetaa.c: In function ‘check_mmap’:
mmgetaa.c:1077:31: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 4 has type ‘MM_OFF’ {aka ‘long int’} [-Wformat=]
 1077 |       fprintf(stderr,"%d:\t%lld\t%lld\t%lld\n",
      |                            ~~~^
      |                               |
      |                               long long int
      |                            %ld
 1078 |               i,m_fd->d_pos_arr[i],m_fd->s_pos_arr[i],
      |                 ~~~~~~~~~~~~~~~~~~
      |                                |
      |                                MM_OFF {aka long int}
mmgetaa.c:1077:37: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 5 has type ‘MM_OFF’ {aka ‘long int’} [-Wformat=]
 1077 |       fprintf(stderr,"%d:\t%lld\t%lld\t%lld\n",
      |                                  ~~~^
      |                                     |
      |                                     long long int
      |                                  %ld
 1078 |               i,m_fd->d_pos_arr[i],m_fd->s_pos_arr[i],
      |                                    ~~~~~~~~~~~~~~~~~~
      |                                                   |
      |                                                   MM_OFF {aka long int}
mmgetaa.c:1077:43: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 6 has type ‘MM_OFF’ {aka ‘long int’} [-Wformat=]
 1077 |       fprintf(stderr,"%d:\t%lld\t%lld\t%lld\n",
      |                                        ~~~^
      |                                           |
      |                                           long long int
      |                                        %ld
 1078 |               i,m_fd->d_pos_arr[i],m_fd->s_pos_arr[i],
 1079 |               m_fd->d_pos_arr[i+1]-m_fd->s_pos_arr[i]);
      |               ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      |                                   |
      |                                   MM_OFF {aka long int}
make[2]: *** [../make/Makefile.fcom:300: lgetaa_m.o] Error 1
make[2]: Leaving directory '/build/reproducible-path/fasta3-36.3.8i.14-Nov-2020/src'
dh_auto_build: error: cd src && make -j8 "INSTALL=install --strip-program=true" -f ../make/Makefile.linux64 returned exit code 2
make[1]: *** [debian/rules:26: override_dh_auto_build] Error 25
make[1]: Leaving directory '/build/reproducible-path/fasta3-36.3.8i.14-Nov-2020'
make: *** [debian/rules:20: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2