Mock Version: 3.5
Mock Version: 3.5
Mock Version: 3.5
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target riscv64 --nodeps /builddir/build/SPECS/seaview.spec'], chrootPath='/var/lib/mock/f40-build-751935-116372/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x3f87176dd0>timeout=1209600uid=991gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target riscv64 --nodeps /builddir/build/SPECS/seaview.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'} and shell False
warning: %patchN is deprecated (1 usages found), use %patch N (or %patch -P N)
Building target platforms: riscv64
Building for target riscv64
setting SOURCE_DATE_EPOCH=1689984000
Wrote: /builddir/build/SRPMS/seaview-5.0-8.fc40.src.rpm
RPM build warnings:
    %patchN is deprecated (1 usages found), use %patch N (or %patch -P N)
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target riscv64 --nodeps /builddir/build/SPECS/seaview.spec'], chrootPath='/var/lib/mock/f40-build-751935-116372/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x3f87176dd0>timeout=1209600uid=991gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target riscv64 --nodeps /builddir/build/SPECS/seaview.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'} and shell False
warning: %patchN is deprecated (1 usages found), use %patch N (or %patch -P N)
Building target platforms: riscv64
Building for target riscv64
setting SOURCE_DATE_EPOCH=1689984000
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.alDuBx
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf seaview
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/seaview_5.0.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd seaview
+ rm -rf /builddir/build/BUILD/seaview-SPECPARTS
+ /usr/bin/mkdir -p /builddir/build/BUILD/seaview-SPECPARTS
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ echo 'Patch #0 (seaview-chris.patch):'
Patch #0 (seaview-chris.patch):
+ /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .chris --fuzz=0
patching file csrc/dnapars.c
patching file csrc/phylip.c
patching file csrc/phylip.h
patching file csrc/protpars.c
patching file Makefile
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.EYLJMq
+ umask 022
+ cd /builddir/build/BUILD
+ CFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd seaview
+ make -j4
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF seaview.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF custom.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF use_mase_files.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF regions.cxx
regions.cxx: In function ‘void save_active_region(SEA_VIEW*)’:
regions.cxx:502:10: warning: variable ‘taille’ set but not used [-Wunused-but-set-variable]
  502 | int tmp, taille;
      |          ^~~~~~
regions.cxx: In function ‘int create_gblocks_mask(SEA_VIEW*, region*, int, int, int, int, int)’:
regions.cxx:313:9: warning: ignoring return value of ‘int system(const char*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  313 |   system(cmd);
      |   ~~~~~~^~~~~
use_mase_files.cxx: In function ‘int read_mase_seqs_header(const char*, char***, char***, char***, char**, char**)’:
use_mase_files.cxx:215:9: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation]
  215 |         while((line[l-1] == ' ' || line[l-1] == '\n') && l>0 ) l--; line[l] = 0;
      |         ^~~~~
use_mase_files.cxx:215:69: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’
  215 |         while((line[l-1] == ' ' || line[l-1] == '\n') && l>0 ) l--; line[l] = 0;
      |                                                                     ^~~~
use_mase_files.cxx: In function ‘int read_clustal_align(const char*, char***, char***, char***, char**, char**)’:
use_mase_files.cxx:623:17: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation]
  623 |                 while(*p==' ') p--; *(p+1)=0;
      |                 ^~~~~
use_mase_files.cxx:623:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’
  623 |                 while(*p==' ') p--; *(p+1)=0;
      |                                     ^
seaview.cxx: In function ‘int delete_selected_seqs(SEA_VIEW*)’:
seaview.cxx:1770:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
 1770 |         for(i = 0, j = 0; i<  view->tot_seqs; i++)
      |         ^~~
seaview.cxx:1773:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
 1773 |                 memcpy(view->col_rank , temp_data, new_tot_seqs * sizeof(char *) );
      |                 ^~~~~~
seaview.cxx: In function ‘void colors_callback(Fl_Widget*, void*)’:
seaview.cxx:1924:15: warning: variable ‘item’ set but not used [-Wunused-but-set-variable]
 1924 | Fl_Menu_Item *item;
      |               ^~~~
seaview.cxx: In function ‘void delete_tmp_filename(const char*)’:
seaview.cxx:653:9: warning: ignoring return value of ‘int system(const char*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  653 |   system(fname);
      |   ~~~~~~^~~~~~~
seaview.cxx: In function ‘char* run_and_close_native_file_chooser(Fl_Native_File_Chooser*, int)’:
seaview.cxx:2916:45: warning: ignoring return value of ‘int chdir(const char*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2916 |           if( *last_visited_directory )chdir(last_visited_directory);
      |                                        ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
regions.cxx:291:26: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 496 [-Wformat-overflow=]
  291 |   sprintf(cmd, "\"%s\" \"%s\" -p=s -t=%c", q, fname, view->protein?'p':'d');
      |                          ^~                   ~~~~~
In file included from /usr/include/stdio.h:980,
                 from seaview.h:3,
                 from regions.cxx:1:
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘int create_gblocks_mask(SEA_VIEW*, region*, int, int, int, int, int)’ at regions.cxx:291:10:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 16 or more bytes (assuming 4111) into a destination of size 500
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
regions.cxx: In function ‘int create_gblocks_mask(SEA_VIEW*, region*, int, int, int, int, int)’:
regions.cxx:343:42: warning: ‘last’ may be used uninitialized [-Wmaybe-uninitialized]
  343 |         memmove(cmd, last, l + 1 - (last - cmd));
      |                                     ~~~~~^~~~~
regions.cxx:246:56: note: ‘last’ was declared here
  246 |   char base_fname[PATH_MAX], fname[PATH_MAX], *p, *q, *last;
      |                                                        ^~~~
regions.cxx: In function ‘const char* site_mask_creation_dialog(SEA_VIEW*, position_mask*)’:
regions.cxx:745:10: warning: ‘retval’ may be used uninitialized [-Wmaybe-uninitialized]
  745 |   return retval;
      |          ^~~~~~
regions.cxx:687:15: note: ‘retval’ was declared here
  687 |   const char *retval;
      |               ^~~~~~
seaview.cxx: In function ‘void help_callback(Fl_Widget*, void*)’:
seaview.cxx:3633:53: warning: ‘%s’ directive argument is null [-Wformat-overflow=]
 3633 |                                          "Help file %s\nnot found in PATH directories nor in current directory", help_file
      |                                                     ^~
seaview.cxx: In function ‘void _Z11draw_headerP9Fl_WidgetP9_SEA_VIEW.part.0(Fl_Widget*, SEA_VIEW*)’:
seaview.cxx:1141:23: warning: ‘%7d’ directive writing between 7 and 11 bytes into a region of size 10 [-Wformat-overflow=]
 1141 |   sprintf(site_line, "%7d", view->first_site + view->tot_sites - 1);
      |                       ^~~
seaview.cxx:1141:22: note: directive argument in the range [-2147483648, 2147483646]
 1141 |   sprintf(site_line, "%7d", view->first_site + view->tot_sites - 1);
      |                      ^~~~~
In file included from /usr/include/stdio.h:980,
                 from seaview.h:3,
                 from seaview.cxx:67:
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void _Z11draw_headerP9Fl_WidgetP9_SEA_VIEW.part.0(Fl_Widget*, SEA_VIEW*)’ at seaview.cxx:1141:10:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 8 and 12 bytes into a destination of size 10
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF load_seq.cxx
use_mase_files.cxx: In function ‘int read_mase_seqs_header(const char*, char***, char***, char***, char**, char**)’:
use_mase_files.cxx:167:32: warning: ‘lpre’ may be used uninitialized [-Wmaybe-uninitialized]
  167 |                         if(lpre+lseq > curr_max_header) {
      |                            ~~~~^~~~~
use_mase_files.cxx:137:18: note: ‘lpre’ was declared here
  137 | int  l, lenseqs, lpre, lseq, l2, totseqs = -1, want_header, curr_max_header;
      |                  ^~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF align.cxx
use_mase_files.cxx: In function ‘int read_phylip_align(const char*, char***, char***, char***, char**, char**)’:
use_mase_files.cxx:521:7: warning: ‘q’ may be used uninitialized [-Wmaybe-uninitialized]
  521 | l = q - seq[totseqs - 1];
      |     ~~^~~~~~~~~~~~~~~~~~
use_mase_files.cxx:466:11: note: ‘q’ was declared here
  466 | char *p, *q;
      |           ^
use_mase_files.cxx: In function ‘int read_clustal_align(const char*, char***, char***, char***, char**, char**)’:
use_mase_files.cxx:617:61: warning: ‘wid_name’ may be used uninitialized [-Wmaybe-uninitialized]
  617 |                 seqname[curr_spec] = (char *)malloc(wid_name+1);
      |                                                     ~~~~~~~~^~
use_mase_files.cxx:564:16: note: ‘wid_name’ was declared here
  564 |         carac, wid_name;
      |                ^~~~~~~~
use_mase_files.cxx:650:15: warning: ‘l’ may be used uninitialized [-Wmaybe-uninitialized]
  650 |         memcpy(seq[curr_spec]+curr_len, line + wid_name, l);
      |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
use_mase_files.cxx:563:8: note: ‘l’ was declared here
  563 | int i, l, curr_spec, first=TRUE, curr_len, next_len, tot_spec, curr_max_len,
      |        ^
align.cxx: In function ‘void replace_stars(char*)’:
align.cxx:1302:14: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 1302 |         fread(all, 1, l, in);
      |         ~~~~~^~~~~~~~~~~~~~~
align.cxx: In function ‘void edit_align_callback(Fl_Widget*, void*)’:
align.cxx:944:30: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
  944 | sprintf(resname, "msa_name_%d", view->alignment_algorithm + 1);
      |                              ^
In file included from /usr/include/stdio.h:980,
                 from seaview.h:3,
                 from align.cxx:1:
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void edit_align_callback(Fl_Widget*, void*)’ at align.cxx:944:8:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 11 and 21 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void edit_align_callback(Fl_Widget*, void*)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘void edit_align_callback(Fl_Widget*, void*)’ at align.cxx:946:21:
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘void edit_align_callback(Fl_Widget*, void*)’ at align.cxx:946:21:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void align_opt_callback(Fl_Widget*, long int)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘void align_opt_callback(Fl_Widget*, long int)’ at align.cxx:968:22:
align.cxx:991:18: note: directive argument in the range [1, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘void align_opt_callback(Fl_Widget*, long int)’ at align.cxx:968:22:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 24 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void align_opt_callback(Fl_Widget*, long int)’:
align.cxx:973:17: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size 5 [-Wformat-overflow=]
  973 |   sprintf(tmp, "%d", reponse);
      |                 ^~
align.cxx:973:16: note: directive argument in the range [0, 2147483646]
  973 |   sprintf(tmp, "%d", reponse);
      |                ^~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void align_opt_callback(Fl_Widget*, long int)’ at align.cxx:973:10:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 5
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:825:31: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
  825 | sprintf(msa_name, "msa_name_%d", view->alignment_algorithm + 1);
      |                               ^
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:825:8:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 11 and 21 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:835:39: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
  835 |         sprintf(msa_name, "msa_name_%d", num + 1);
      |                                       ^
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:835:9:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 11 and 21 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:837:39: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
  837 |         sprintf(msa_name, "msa_name_%d", num);
      |                                       ^
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:837:9:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 11 and 21 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:840:39: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
  840 |         sprintf(msa_name, "msa_args_%d", num + 1);
      |                                       ^
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:840:9:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 11 and 21 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:842:39: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
  842 |         sprintf(msa_name, "msa_args_%d", num);
      |                                       ^
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:842:9:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 11 and 21 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:845:24:
align.cxx:991:18: note: directive argument in the range [-2147483646, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:845:24:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:853:39:
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483646]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:853:39:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:849:26:
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483646]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:849:26:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void delete_align_callback(Fl_Widget*, void*)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:873:21:
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘void delete_align_callback(Fl_Widget*, void*)’ at align.cxx:873:21:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
use_mase_files.cxx: In function ‘int printout(SEA_VIEW*, const char*, int, int, Fl_Paged_Device::Page_Format, int, int, int, Fl_Paged_Device::Page_Layout, int)’:
use_mase_files.cxx:1831:35: warning: ‘lines_per_page’ may be used uninitialized [-Wmaybe-uninitialized]
 1831 |       if( use_pdf && (!firstpage) && (curr_lines + view->tot_seqs + nl > lines_per_page)) {
      |           ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
use_mase_files.cxx:1678:32: note: ‘lines_per_page’ was declared here
 1678 |   res_per_line, nl, firstpage, lines_per_page, use_pdf, use_svg, top_margin;
      |                                ^~~~~~~~~~~~~~
use_mase_files.cxx:1767:14: warning: ‘top_margin’ may be used uninitialized [-Wmaybe-uninitialized]
 1767 |       fl_draw(oneline, margin, top_margin);
      |       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
use_mase_files.cxx:1678:66: note: ‘top_margin’ was declared here
 1678 |   res_per_line, nl, firstpage, lines_per_page, use_pdf, use_svg, top_margin;
      |                                                                  ^~~~~~~~~~
In function ‘void color_pdf_display(SEA_VIEW*, int (*)(int), char*, int, double, double, int, double, double, int, int)’,
    inlined from ‘int printout(SEA_VIEW*, const char*, int, int, Fl_Paged_Device::Page_Format, int, int, int, Fl_Paged_Device::Page_Layout, int)’ at use_mase_files.cxx:1916:34:
use_mase_files.cxx:1980:33: warning: ‘descender’ may be used uninitialized [-Wmaybe-uninitialized]
 1980 |       fl_rectf(xx, y - fontsize + descender, char_width+1, fontsize);
      |                    ~~~~~~~~~~~~~^~~~~~~~~~~
use_mase_files.cxx: In function ‘int printout(SEA_VIEW*, const char*, int, int, Fl_Paged_Device::Page_Format, int, int, int, Fl_Paged_Device::Page_Layout, int)’:
use_mase_files.cxx:1689:42: note: ‘descender’ was declared here
 1689 |   double        char_width = fontsize/2, descender, margin = 25;
      |                                          ^~~~~~~~~
use_mase_files.cxx:1766:51: warning: ‘surface’ may be used uninitialized [-Wmaybe-uninitialized]
 1766 |       ((Fl_PDF_or_PS_File_Device*)surface)->origin(0, fontsize);
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
use_mase_files.cxx:1679:22: note: ‘surface’ was declared here
 1679 |   Fl_Surface_Device *surface;
      |                      ^~~~~~~
In file included from /usr/include/string.h:548,
                 from seaview.h:5,
                 from use_mase_files.cxx:1:
In function ‘void* memset(void*, int, size_t)’,
    inlined from ‘int printout(SEA_VIEW*, const char*, int, int, Fl_Paged_Device::Page_Format, int, int, int, Fl_Paged_Device::Page_Layout, int)’ at use_mase_files.cxx:1820:8:
/usr/include/bits/string_fortified.h:59:33: warning: ‘vary_pos’ may be used uninitialized [-Wmaybe-uninitialized]
   59 |   return __builtin___memset_chk (__dest, __ch, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
   60 |                                  __glibc_objsize0 (__dest));
      |                                  ~~~~~~~~~~~~~~~~~~~~~~~~~~
use_mase_files.cxx: In function ‘int printout(SEA_VIEW*, const char*, int, int, Fl_Paged_Device::Page_Format, int, int, int, Fl_Paged_Device::Page_Layout, int)’:
use_mase_files.cxx:1686:8: note: ‘vary_pos’ was declared here
 1686 |   int *vary_pos; /* rang ds alignement de la colonne imprim�e */
      |        ^~~~~~~~
seaview.cxx: In function ‘void goto_callback(Fl_Widget*, void*)’:
seaview.cxx:2745:16: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-truncation]
 2745 |         strncpy(target, p, l); target[l] = 0; majuscules(target);
      |                ^
seaview.cxx:2743:19: note: length computed here
 2743 |         l = strlen(p);
      |             ~~~~~~^~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF xfmatpt.cxx
align.cxx: In function ‘char* calc_msa_command(SEA_VIEW*, char*, void (*)(const char*, ...))’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘char* calc_msa_command(SEA_VIEW*, char*, void (*)(const char*, ...))’ at align.cxx:614:24:
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘char* calc_msa_command(SEA_VIEW*, char*, void (*)(const char*, ...))’ at align.cxx:614:24:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void cre_align_menu(SEA_VIEW*)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘void cre_align_menu(SEA_VIEW*)’ at align.cxx:749:23:
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32,
    inlined from ‘void cre_align_menu(SEA_VIEW*)’ at align.cxx:749:23:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘char* get_algo_opts(int, char**)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
In function ‘char* get_opt_resname(int)’,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32:
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8,
    inlined from ‘char* get_algo_opts(int, char**)’ at align.cxx:982:32:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘char* get_opt_resname(int)’:
align.cxx:991:32: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                                ^~
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* get_opt_resname(int)’ at align.cxx:991:8:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
In file included from /usr/include/string.h:548,
                 from seaview.h:5:
In function ‘void* memset(void*, int, size_t)’,
    inlined from ‘int insert_gaps_at(SEA_VIEW*, int, int, int)’ at seaview.cxx:3691:8:
/usr/include/bits/string_fortified.h:59:33: warning: ‘gapcolor’ may be used uninitialized [-Wmaybe-uninitialized]
   59 |   return __builtin___memset_chk (__dest, __ch, __len,
      |          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
   60 |                                  __glibc_objsize0 (__dest));
      |                                  ~~~~~~~~~~~~~~~~~~~~~~~~~~
seaview.cxx: In function ‘int insert_gaps_at(SEA_VIEW*, int, int, int)’:
seaview.cxx:3671:8: note: ‘gapcolor’ was declared here
 3671 | int l, gapcolor, *plength;
      |        ^~~~~~~~
seaview.cxx: In function ‘void del_gap_only_sites(SEA_VIEW*)’:
seaview.cxx:1707:23: warning: ‘debut’ may be used uninitialized [-Wmaybe-uninitialized]
 1707 |                 count = position - debut;
      |                 ~~~~~~^~~~~~~~~~~~~~~~~~
seaview.cxx:1686:39: note: ‘debut’ was declared here
 1686 | int position, numseq, allgaps, inrun, debut, count;
      |                                       ^~~~~
align.cxx: In function ‘int save_fasta_file_no_gaponly(char*, char**, int, int*, int*)’:
align.cxx:1345:42: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size 8 [-Wformat-overflow=]
 1345 |                 sprintf(seqname[num], "S_%d", num);
      |                                          ^~
align.cxx:1345:39: note: directive argument in the range [0, 2147483646]
 1345 |                 sprintf(seqname[num], "S_%d", num);
      |                                       ^~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘int save_fasta_file_no_gaponly(char*, char**, int, int*, int*)’ at align.cxx:1345:10:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 4 and 13 bytes into a destination of size 10
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘void unalign(SEA_VIEW*)’:
align.cxx:1415:91: warning: ‘calc_color_function’ may be used uninitialized [-Wmaybe-uninitialized]
 1415 |                                         view->col_rank[num][i] = (char)calc_color_function( res );
      |                                                                        ~~~~~~~~~~~~~~~~~~~^~~~~~~
align.cxx:1387:15: note: ‘calc_color_function’ was declared here
 1387 |         int (*calc_color_function)(int);
      |               ^~~~~~~~~~~~~~~~~~~
align.cxx: In function ‘int replace_align_part(SEA_VIEW*, int, int, char*, int, int, int*, align_choice, const char**)’:
align.cxx:455:83: warning: ‘calc_color_function’ may be used uninitialized [-Wmaybe-uninitialized]
  455 |                                 view->col_rank[num][i] = (char)calc_color_function( res );
      |                                                                ~~~~~~~~~~~~~~~~~~~^~~~~~~
align.cxx:300:7: note: ‘calc_color_function’ was declared here
  300 | int (*calc_color_function)(int);
      |       ^~~~~~~~~~~~~~~~~~~
seaview.cxx: In function ‘int delete_selected_seqs(SEA_VIEW*)’:
seaview.cxx:1741:48: warning: ‘temp_data’ may be used uninitialized [-Wmaybe-uninitialized]
 1741 |         if( ! view->sel_seqs[i] ) temp_data[j++] = (void *) view->sequence[i];
      |                                                ^
seaview.cxx:1729:8: note: ‘temp_data’ was declared here
 1729 | void **temp_data;
      |        ^~~~~~~~~
seaview.cxx:1766:47: warning: ‘temp_int’ may be used uninitialized [-Wmaybe-uninitialized]
 1766 |         if( ! view->sel_seqs[i] ) temp_int[j++]= view->each_length[i];
      |                                               ^
seaview.cxx:1731:26: note: ‘temp_int’ was declared here
 1731 | int new_tot_seqs, i, j, *temp_int, numset;
      |                          ^~~~~~~~
use_mase_files.cxx: In function ‘void format_conversion(int, char**)’:
use_mase_files.cxx:2369:3: warning: ‘err_message’ may be used uninitialized [-Wmaybe-uninitialized]
 2369 |   if (err_message) {
      |   ^~
use_mase_files.cxx:2171:9: note: ‘err_message’ was declared here
 2171 |   char *err_message, *p;
      |         ^~~~~~~~~~~
use_mase_files.cxx:2270:27: warning: ‘current_seg’ may be used uninitialized [-Wmaybe-uninitialized]
 2270 |         current_seg->next = seg;
      |         ~~~~~~~~~~~~~~~~~~^~~~~
use_mase_files.cxx:2235:20: note: ‘current_seg’ was declared here
 2235 |     list_segments *current_seg;
      |                    ^~~~~~~~~~~
seaview.cxx: In function ‘void deplacer_grp_seqs(SEA_VIEW*, int)’:
seaview.cxx:3888:57: warning: ‘*new_rank_214 + _287’ may be used uninitialized [-Wmaybe-uninitialized]
 3888 |         view->cursor_seq = new_rank[view->cursor_seq - 1] + 1;
      |                            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^
seaview.cxx: In function ‘void edit_menu_callback(Fl_Widget*, void*)’:
seaview.cxx:2580:17: warning: ‘new_pos’ may be used uninitialized [-Wmaybe-uninitialized]
 2580 |         new_pos += 2;
      |         ~~~~~~~~^~~~
seaview.cxx:2564:30: note: ‘new_pos’ was declared here
 2564 |         int old_total, *tmp, new_pos, i, old_first_seq;
      |                              ^~~~~~~
align.cxx: In function ‘void profile_align(SEA_VIEW*)’:
align.cxx:1281:90: warning: ‘calc_color_function’ may be used uninitialized [-Wmaybe-uninitialized]
 1281 |                                 view->col_rank[table[num]][i] = (char)calc_color_function( res );
      |                                                                       ~~~~~~~~~~~~~~~~~~~^~~~~~~
align.cxx:1108:15: note: ‘calc_color_function’ was declared here
 1108 |         int (*calc_color_function)(int);
      |               ^~~~~~~~~~~~~~~~~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF comlines.cxx
xfmatpt.cxx: In function ‘void change_comput_params(Fl_Widget*, void*)’:
xfmatpt.cxx:750:24: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=]
  750 |         sprintf(tmp,"%d", fdui->identites);
      |                        ^
In file included from /usr/include/stdio.h:980,
                 from seaview.h:3,
                 from matpt.h:3,
                 from xfmatpt.cxx:1:
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void change_comput_params(Fl_Widget*, void*)’ at xfmatpt.cxx:750:9:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 10
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
align.cxx: In function ‘int command_line_align(int, char**)’:
align.cxx:1507:37: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size 7 [-Wformat-overflow=]
 1507 |     sprintf(opt_name, "msa_opt_args_%d", view->alignment_algorithm + 1);
      |                                     ^~
align.cxx:1507:23: note: directive argument in the range [-2147483647, 2147483647]
 1507 |     sprintf(opt_name, "msa_opt_args_%d", view->alignment_algorithm + 1);
      |                       ^~~~~~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘int command_line_align(int, char**)’ at align.cxx:1507:12:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 15 and 25 bytes into a destination of size 20
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF resource.cxx
seaview.cxx: In function ‘void handle_keyboard(SEA_VIEW*, unsigned int, int)’:
seaview.cxx:4630:9: warning: ‘count_each’ may be used uninitialized [-Wmaybe-uninitialized]
 4630 |         if(count_each == multipl &&
      |         ^~
seaview.cxx:4594:20: note: ‘count_each’ was declared here
 4594 |         int count, count_each, debut, fin, test;
      |                    ^~~~~~~~~~
seaview.cxx:4757:17: warning: ‘count_each’ may be used uninitialized [-Wmaybe-uninitialized]
 4757 |                 if(count_each == multipl &&
      |                 ^~
seaview.cxx:4692:39: note: ‘count_each’ was declared here
 4692 |         int newlength = 0, count = 0, count_each, debut, fin, test;
      |                                       ^~~~~~~~~~
seaview.cxx:4681:9: warning: ‘count_each’ may be used uninitialized [-Wmaybe-uninitialized]
 4681 |         if(count_each == multipl && view->regions != NULL)
      |         ^~
seaview.cxx:4658:13: note: ‘count_each’ was declared here
 4658 |         int count_each;
      |             ^~~~~~~~~~
seaview.cxx:4640:17: warning: ‘count’ may be used uninitialized [-Wmaybe-uninitialized]
 4640 |         new_pos = view->cursor_site - count;
      |         ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
seaview.cxx:4594:13: note: ‘count’ was declared here
 4594 |         int count, count_each, debut, fin, test;
      |             ^~~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF nexus.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF viewasprots.cxx
xfmatpt.cxx: In function ‘int really_close(FD_matpt*)’:
xfmatpt.cxx:889:5: warning: ‘void free(void*)’ called on pointer ‘*matpt.FD_matpt::seq1’ with nonzero offset 1 [-Wfree-nonheap-object]
  889 | free(matpt->seq1 + 1);
      | ~~~~^~~~~~~~~~~~~~~~~
xfmatpt.cxx:890:5: warning: ‘void free(void*)’ called on pointer ‘*matpt.FD_matpt::seq2’ with nonzero offset 1 [-Wfree-nonheap-object]
  890 | free(matpt->seq2 + 1);
      | ~~~~^~~~~~~~~~~~~~~~~
xfmatpt.cxx: In function ‘void show_dot_plot(char*, char*, char*, char*, int, int, int, void*)’:
xfmatpt.cxx:124:21: warning: ‘void free(void*)’ called on pointer ‘*matpt.FD_matpt::seq1’ with nonzero offset 1 [-Wfree-nonheap-object]
  124 |                 free(matpt->seq1+1);
      |                 ~~~~^~~~~~~~~~~~~~~
xfmatpt.cxx:125:21: warning: ‘void free(void*)’ called on pointer ‘*matpt.FD_matpt::seq2’ with nonzero offset 1 [-Wfree-nonheap-object]
  125 |                 free(matpt->seq2+1);
      |                 ~~~~^~~~~~~~~~~~~~~
nexus.cxx: In function ‘char* next_token(FILE*)’:
nexus.cxx:155:36: warning: pointer may be used after ‘void* realloc(void*, size_t)’ [-Wuse-after-free]
  155 |                         p = q + (p - big_token);
      |                                  ~~^~~~~~~~~~~
nexus.cxx:153:44: note: call to ‘void* realloc(void*, size_t)’ here
  153 |                         q = (char *)realloc(big_token, l_token);
      |                                     ~~~~~~~^~~~~~~~~~~~~~~~~~~~
nexus.cxx:173:36: warning: pointer may be used after ‘void* realloc(void*, size_t)’ [-Wuse-after-free]
  173 |                         p = q + (p - big_token);
      |                                  ~~^~~~~~~~~~~
nexus.cxx:171:44: note: call to ‘void* realloc(void*, size_t)’ here
  171 |                         q = (char *)realloc(big_token, l_token);
      |                                     ~~~~~~~^~~~~~~~~~~~~~~~~~~~
nexus.cxx: In function ‘char** process_taxa_taxlabels(FILE*, int)’:
nexus.cxx:357:1: warning: ‘p’ may be used uninitialized [-Wmaybe-uninitialized]
  357 | if(p != NULL && *p != ';') skip_command(in);
      | ^~
nexus.cxx:343:7: note: ‘p’ was declared here
  343 | char *p, **names;
      |       ^
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF racnuc_fetch.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF concatenate.cxx
nexus.cxx: In function ‘list_segments* build_list_pairs(FILE*, int)’:
nexus.cxx:466:36: warning: ‘next’ may be used uninitialized [-Wmaybe-uninitialized]
  466 |                 else    next->next = elt;
      |                         ~~~~~~~~~~~^~~~~
nexus.cxx:424:30: note: ‘next’ was declared here
  424 | list_segments *list = NULL, *next, *elt;
      |                              ^~~~
nexus.cxx: In function ‘char** process_block_characters(FILE*, int*, char***, int*, int*)’:
nexus.cxx:685:52: warning: ‘gap’ may be used uninitialized [-Wmaybe-uninitialized]
  685 |                         seqs = process_chars_matrix(in, *nsites, gap,
      |                                ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
  686 |                                 *pntaxa, *taxnames, FALSE, matchchar, missing, *protein);
      |                                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nexus.cxx:667:19: note: ‘gap’ was declared here
  667 | int interleave=0, gap, matchchar = 0, missing = 0;
      |                   ^~~
concatenate.cxx: In function ‘void concatenate(SEA_VIEW*, SEA_VIEW*, bool, bool, bool)’:
concatenate.cxx:124:32: warning: ‘found’ may be used uninitialized [-Wmaybe-uninitialized]
  124 |       if (want_addgaps) found[j] = TRUE;
      |                                ^
concatenate.cxx:100:17: note: ‘found’ was declared here
  100 |   int i, j, l, *found, target_length = target->seq_length;
      |                 ^~~~~
concatenate.cxx:114:25: warning: ‘gaps’ may be used uninitialized [-Wmaybe-uninitialized]
  114 |         add_seq_to_align(target, source->seqname[i], gaps, target_length, no_gui);
      |         ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
concatenate.cxx:101:9: note: ‘gaps’ was declared here
  101 |   char *gaps;
      |         ^~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF statistics.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF trees.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF treedraw.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF addbootstrap.cxx
trees.cxx: In function ‘matrix* Obs_Dist(allseq*, model*)’:
trees.cxx:1577:16: warning: variable ‘unc_len’ set but not used [-Wunused-but-set-variable]
 1577 |         phydbl unc_len;
      |                ^~~~~~~
trees.cxx: In function ‘matrix* K80_dist_nogamma(allseq*)’:
trees.cxx:1719:16: warning: variable ‘unc_len’ set but not used [-Wunused-but-set-variable]
 1719 |         phydbl unc_len;
      |                ^~~~~~~
trees.cxx: In function ‘void run_phyml_callback(Fl_Widget*, void*)’:
trees.cxx:1297:16: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 1297 |           fread(bootstrap_trees, l, 1, in);
      |           ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
trees.cxx: In function ‘void command_line_phylogeny(int, char**)’:
trees.cxx:2790:12: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2790 |       fread(utree, s, 1, in);
      |       ~~~~~^~~~~~~~~~~~~~~~~
trees.cxx: In function ‘char* parsimony_with_bootstrap(allseq*, char**, char**, int, int, int, int*, int, int, Fl_Box*, int*, dnapars_S_option, int, float, int*, char**)’:
trees.cxx:2401:25: warning: pointer ‘bootstrap_trees’ used after ‘void* realloc(void*, size_t)’ [-Wuse-after-free]
 2401 |           q = tmpc + (q - bootstrap_trees);
      |                       ~~^~~~~~~~~~~~~~~~~
trees.cxx:2400:38: note: call to ‘void* realloc(void*, size_t)’ here
 2400 |           char *tmpc = (char*)realloc(bootstrap_trees, lbtrees + 1);
      |                               ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
trees.cxx: In function ‘void run_phyml_callback(Fl_Widget*, void*)’:
trees.cxx:1278:30: warning: pointer ‘b_tree’ used after ‘void* realloc(void*, size_t)’ [-Wuse-after-free]
 1278 |               q = tree2 + (q - b_tree);
      |                            ~~^~~~~~~~
trees.cxx:1277:38: note: call to ‘void* realloc(void*, size_t)’ here
 1277 |               tree2 = (char *)realloc(b_tree, l + 1);
      |                               ~~~~~~~^~~~~~~~~~~~~~~
statistics.cxx: In function ‘void geni_act(SEA_VIEW*)’:
statistics.cxx:366:43: warning: ‘compgroup’ may be used uninitialized [-Wmaybe-uninitialized]
  366 |   double **comp, *compall, compcomp[4], **compgroup, *compgroupall, min[4], max[4];
      |                                           ^~~~~~~~~
statistics.cxx:366:55: warning: ‘compgroupall’ may be used uninitialized [-Wmaybe-uninitialized]
  366 |   double **comp, *compall, compcomp[4], **compgroup, *compgroupall, min[4], max[4];
      |                                                       ^~~~~~~~~~~~
In file included from /usr/include/stdio.h:980,
                 from seaview.h:3,
                 from statistics.cxx:1:
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void geni_act(SEA_VIEW*)’ at statistics.cxx:649:14:
/usr/include/bits/stdio2.h:30:34: warning: ‘titvmin’ may be used uninitialized [-Wmaybe-uninitialized]
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
statistics.cxx: In function ‘void geni_act(SEA_VIEW*)’:
statistics.cxx:367:77: note: ‘titvmin’ was declared here
  367 |   double P, Psum=0., Q, Qsum=0., Pmin=0, Pmax=0, Qmin=0, Qmax=0, titvratio, titvmin, titvmax, freq[16], mat_obs[16], *ti, *tv;
      |                                                                             ^~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void geni_act(SEA_VIEW*)’ at statistics.cxx:651:14:
/usr/include/bits/stdio2.h:30:34: warning: ‘titvmax’ may be used uninitialized [-Wmaybe-uninitialized]
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
statistics.cxx: In function ‘void geni_act(SEA_VIEW*)’:
statistics.cxx:367:86: note: ‘titvmax’ was declared here
  367 |   double P, Psum=0., Q, Qsum=0., Pmin=0, Pmax=0, Qmin=0, Qmax=0, titvratio, titvmin, titvmax, freq[16], mat_obs[16], *ti, *tv;
      |                                                                                      ^~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void geni_act(SEA_VIEW*)’ at statistics.cxx:649:14:
/usr/include/bits/stdio2.h:30:34: warning: ‘titvminname1’ may be used uninitialized [-Wmaybe-uninitialized]
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
statistics.cxx: In function ‘void geni_act(SEA_VIEW*)’:
statistics.cxx:369:9: note: ‘titvminname1’ was declared here
  369 |   char *titvminname1, *titvminname2;
      |         ^~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void geni_act(SEA_VIEW*)’ at statistics.cxx:649:14:
/usr/include/bits/stdio2.h:30:34: warning: ‘titvminname2’ may be used uninitialized [-Wmaybe-uninitialized]
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
statistics.cxx: In function ‘void geni_act(SEA_VIEW*)’:
statistics.cxx:369:24: note: ‘titvminname2’ was declared here
  369 |   char *titvminname1, *titvminname2;
      |                        ^~~~~~~~~~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF least_squares_brl.cxx
least_squares_brl.cxx: In function ‘int tree_btos(int**, int, double*, double*, double*, char**, noeud2**)’:
least_squares_brl.cxx:373:41: warning: ‘tax1’ may be used uninitialized [-Wmaybe-uninitialized]
  373 |                 p1 = bottomnode(arbre_s[tax1]);
      |                                         ^~~~
least_squares_brl.cxx:310:48: note: ‘tax1’ was declared here
  310 |         int           notuv, i, j, k, sommebi, tax1, tax2, n1=0, n2=0, n3=0, cpt1=-1;
      |                                                ^~~~
least_squares_brl.cxx:374:41: warning: ‘tax2’ may be used uninitialized [-Wmaybe-uninitialized]
  374 |                 p2 = bottomnode(arbre_s[tax2]);
      |                                         ^~~~
least_squares_brl.cxx:310:54: note: ‘tax2’ was declared here
  310 |         int           notuv, i, j, k, sommebi, tax1, tax2, n1=0, n2=0, n3=0, cpt1=-1;
      |                                                      ^~~~
least_squares_brl.cxx:349:17: warning: ‘sommebi’ may be used uninitialized [-Wmaybe-uninitialized]
  349 |                 if (sommebi == 2) {
      |                 ^~
least_squares_brl.cxx:310:39: note: ‘sommebi’ was declared here
  310 |         int           notuv, i, j, k, sommebi, tax1, tax2, n1=0, n2=0, n3=0, cpt1=-1;
      |                                       ^~~~~~~
addbootstrap.cxx: In function ‘char* compute_consensus_tree(char**, int**, int)’:
addbootstrap.cxx:895:7: warning: ‘k’ may be used uninitialized [-Wmaybe-uninitialized]
  895 |       if (k < height) { // columns were not all identical, try columns on 0-side of branch i
      |       ^~
addbootstrap.cxx:853:13: note: ‘k’ was declared here
  853 |   int i, j, k, l, w, word, restbranches, j1;
      |             ^
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF pseudoterminal.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF unrooted.cxx
trees.cxx: In function ‘char* run_parsimony_method(SEA_VIEW*, int, const char*, int, int, int, int, Fl_Box*, dnapars_S_option, const char**, float, int, char**, void (*)(const char*, ...))’:
trees.cxx:2375:54: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size 9 [-Wformat-overflow=]
 2375 |                   sprintf(tmp, "Bootstrap replicate: %d", j + 1);
      |                                                      ^~
In function ‘char* parsimony_with_bootstrap(allseq*, char**, char**, int, int, int, int*, int, int, Fl_Box*, int*, dnapars_S_option, int, float, int*, char**)’,
    inlined from ‘char* run_parsimony_method(SEA_VIEW*, int, const char*, int, int, int, int, Fl_Box*, dnapars_S_option, const char**, float, int, char**, void (*)(const char*, ...))’ at trees.cxx:2063:36:
trees.cxx:2375:32: note: directive argument in the range [1, 2147483647]
 2375 |                   sprintf(tmp, "Bootstrap replicate: %d", j + 1);
      |                                ^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:980,
                 from seaview.h:3,
                 from trees.cxx:6:
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* parsimony_with_bootstrap(allseq*, char**, char**, int, int, int, int*, int, int, Fl_Box*, int*, dnapars_S_option, int, float, int*, char**)’ at trees.cxx:2375:12,
    inlined from ‘char* run_parsimony_method(SEA_VIEW*, int, const char*, int, int, int, int, Fl_Box*, dnapars_S_option, const char**, float, int, char**, void (*)(const char*, ...))’ at trees.cxx:2063:36:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 23 and 32 bytes into a destination of size 30
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
trees.cxx: In function ‘char* run_parsimony_method(SEA_VIEW*, int, const char*, int, int, int, int, Fl_Box*, dnapars_S_option, const char**, float, int, char**, void (*)(const char*, ...))’:
trees.cxx:2069:57: warning: ‘ best trees, ’ directive writing 13 bytes into a region of size between 12 and 21 [-Wformat-overflow=]
 2069 |       if (count_best > 1) sprintf(best, "consensus of %d best trees, ", count_best);
      |                                                         ^~~~~~~~~~~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘char* run_parsimony_method(SEA_VIEW*, int, const char*, int, int, int, int, Fl_Box*, dnapars_S_option, const char**, float, int, char**, void (*)(const char*, ...))’ at trees.cxx:2069:34:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 28 and 37 bytes into a destination of size 35
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
In function ‘char* parsimony_with_bootstrap(allseq*, char**, char**, int, int, int, int*, int, int, Fl_Box*, int*, dnapars_S_option, int, float, int*, char**)’,
    inlined from ‘char* run_parsimony_method(SEA_VIEW*, int, const char*, int, int, int, int, Fl_Box*, dnapars_S_option, const char**, float, int, char**, void (*)(const char*, ...))’ at trees.cxx:2063:36:
trees.cxx:2420:41: warning: ‘all_best’ may be used uninitialized [-Wmaybe-uninitialized]
 2420 |   if (count > 1) tree = add_equally_best(tree, all_best, count);
      |                         ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
trees.cxx: In function ‘char* run_parsimony_method(SEA_VIEW*, int, const char*, int, int, int, int, Fl_Box*, dnapars_S_option, const char**, float, int, char**, void (*)(const char*, ...))’:
trees.cxx:2353:40: note: ‘all_best’ was declared here
 2353 |         char *tree, *newtree, *p, *q, *all_best, *bootstrap_trees = NULL;
      |                                        ^~~~~~~~
pseudoterminal.cxx: In function ‘int run_external_prog_in_pseudoterm(char*, const char*, const char*)’:
pseudoterminal.cxx:342:32: warning: ignoring return value of ‘FILE* freopen(const char*, const char*, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  342 |                         freopen(dialogfname, "r", stdin);
      |                         ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
pseudoterminal.cxx:344:24: warning: ignoring return value of ‘FILE* freopen(const char*, const char*, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
  344 |                 freopen(slavename, "a", stderr);
      |                 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/FL/Fl_Return_Button.H:24,
                 from seaview.h:18:
In member function ‘char Fl_Button::value() const’,
    inlined from ‘void parsimony_dialog(SEA_VIEW*)’ at trees.cxx:2259:26:
/usr/include/FL/Fl_Button.H:102:30: warning: ‘thorough_b’ may be used uninitialized [-Wmaybe-uninitialized]
  102 |   char value() const {return value_;}
      |                              ^~~~~~
trees.cxx: In function ‘void parsimony_dialog(SEA_VIEW*)’:
trees.cxx:2165:20: note: ‘thorough_b’ was declared here
 2165 |   Fl_Round_Button *thorough_b, *less_thorough_b;
      |                    ^~~~~~~~~~
In member function ‘char Fl_Button::value() const’,
    inlined from ‘void parsimony_dialog(SEA_VIEW*)’ at trees.cxx:2260:36:
/usr/include/FL/Fl_Button.H:102:30: warning: ‘less_thorough_b’ may be used uninitialized [-Wmaybe-uninitialized]
  102 |   char value() const {return value_;}
      |                              ^~~~~~
trees.cxx: In function ‘void parsimony_dialog(SEA_VIEW*)’:
trees.cxx:2165:33: note: ‘less_thorough_b’ was declared here
 2165 |   Fl_Round_Button *thorough_b, *less_thorough_b;
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/FL/Fl_Input.H:25,
                 from seaview.h:16:
In member function ‘const char* Fl_Input_::value() const’,
    inlined from ‘void parsimony_dialog(SEA_VIEW*)’ at trees.cxx:2262:22:
/usr/include/FL/Fl_Input_.H:244:37: warning: ‘w_best’ may be used uninitialized [-Wmaybe-uninitialized]
  244 |   const char* value() const {return value_;}
      |                                     ^~~~~~
trees.cxx: In function ‘void parsimony_dialog(SEA_VIEW*)’:
trees.cxx:2166:17: note: ‘w_best’ was declared here
 2166 |   Fl_Int_Input *w_best;
      |                 ^~~~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF pdf_or_ps.cxx
unrooted.cxx: In function ‘hit try_angle_draw(float, int*, int*, float*, int, int, int, int)’:
unrooted.cxx:634:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  634 |         if(x2 > xmax) xmax = x2; if(x3 > xmax) xmax = x3; if(x4 > xmax) xmax = x4;
      |         ^~
unrooted.cxx:634:34: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  634 |         if(x2 > xmax) xmax = x2; if(x3 > xmax) xmax = x3; if(x4 > xmax) xmax = x4;
      |                                  ^~
unrooted.cxx:635:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  635 |         if(x2 < xmin) xmin = x2; if(x3 < xmin) xmin = x3; if(x4 < xmin) xmin = x4;
      |         ^~
unrooted.cxx:635:34: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  635 |         if(x2 < xmin) xmin = x2; if(x3 < xmin) xmin = x3; if(x4 < xmin) xmin = x4;
      |                                  ^~
unrooted.cxx:636:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  636 |         if(y2 > ymax) ymax = y2; if(y3 > ymax) ymax = y3; if(y4 > ymax) ymax = y4;
      |         ^~
unrooted.cxx:636:34: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  636 |         if(y2 > ymax) ymax = y2; if(y3 > ymax) ymax = y3; if(y4 > ymax) ymax = y4;
      |                                  ^~
unrooted.cxx:637:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
  637 |         if(y2 < ymin) ymin = y2; if(y3 < ymin) ymin = y3; if(y4 < ymin) ymin = y4;
      |         ^~
unrooted.cxx:637:34: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
  637 |         if(y2 < ymin) ymin = y2; if(y3 < ymin) ymin = y3; if(y4 < ymin) ymin = y4;
      |                                  ^~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF svg.cxx
trees.cxx: In function ‘char* run_distance_method(SEA_VIEW*, int, int, int, int, int, Fl_Box*, const char*, int, const char*, const char*, int, void (*)(const char*, ...), int, int)’:
trees.cxx:520:24: warning: ‘display_tree’ may be used uninitialized [-Wmaybe-uninitialized]
  520 |                 return display_tree;
      |                        ^~~~~~~~~~~~
trees.cxx:461:15: note: ‘display_tree’ was declared here
  461 |         char *display_tree, *bootstrap_trees = NULL, *err_mess, tree_label[100]="";
      |               ^~~~~~~~~~~~
unrooted.cxx: In function ‘int set_angles_noeuds(bignoeud*, bignoeud*, double, double*, double)’:
unrooted.cxx:1121:80: warning: ‘poids2’ may be used uninitialized [-Wmaybe-uninitialized]
 1121 |                 debut->position.angle = (poids1*angle1 + poids2*angle2)/(poids1+poids2);
      |                                                                         ~~~~~~~^~~~~~~~
unrooted.cxx:1080:28: note: ‘poids2’ was declared here
 1080 |         int poids, poids1, poids2;
      |                            ^~~~~~
unrooted.cxx:1121:80: warning: ‘poids1’ may be used uninitialized [-Wmaybe-uninitialized]
 1121 |                 debut->position.angle = (poids1*angle1 + poids2*angle2)/(poids1+poids2);
      |                                                                         ~~~~~~~^~~~~~~~
unrooted.cxx:1080:20: note: ‘poids1’ was declared here
 1080 |         int poids, poids1, poids2;
      |                    ^~~~~~
unrooted.cxx:1128:16: warning: ‘poids’ may be used uninitialized [-Wmaybe-uninitialized]
 1128 |         return poids;
      |                ^~~~~
unrooted.cxx:1080:13: note: ‘poids’ was declared here
 1080 |         int poids, poids1, poids2;
      |             ^~~~~
trees.cxx: In function ‘char* replace_tree_names_by_rank(const char*, char**, int)’:
trees.cxx:2728:35: warning: ‘qstart’ may be used uninitialized [-Wmaybe-uninitialized]
 2728 |                                 q = qstart + strlen(qstart);
      |                                 ~~^~~~~~~~~~~~~~~~~~~~~~~~~
trees.cxx:2702:29: note: ‘qstart’ was declared here
 2702 |         char *newtree, *q, *qstart, c;
      |                             ^~~~~~
treedraw.cxx: In function ‘int count_node(noeud*, noeud*)’:
treedraw.cxx:3305:15: warning: argument 2 null where non-null expected [-Wnonnull]
 3305 |     if (strcmp(centre->nom, target1) == 0 || strcmp(centre->nom, target2) == 0 || strcmp(centre->nom, target3) == 0) {
      |         ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
In file included from seaview.h:5,
                 from treedraw.h:4,
                 from treedraw.cxx:18:
/usr/include/string.h:156:12: note: in a call to function ‘int strcmp(const char*, const char*)’ declared ‘nonnull’
  156 | extern int strcmp (const char *__s1, const char *__s2)
      |            ^~~~~~
treedraw.cxx:3305:52: warning: argument 2 null where non-null expected [-Wnonnull]
 3305 |     if (strcmp(centre->nom, target1) == 0 || strcmp(centre->nom, target2) == 0 || strcmp(centre->nom, target3) == 0) {
      |                                              ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
/usr/include/string.h:156:12: note: in a call to function ‘int strcmp(const char*, const char*)’ declared ‘nonnull’
  156 | extern int strcmp (const char *__s1, const char *__s2)
      |            ^~~~~~
treedraw.cxx:3305:89: warning: argument 2 null where non-null expected [-Wnonnull]
 3305 |     if (strcmp(centre->nom, target1) == 0 || strcmp(centre->nom, target2) == 0 || strcmp(centre->nom, target3) == 0) {
      |                                                                                   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
/usr/include/string.h:156:12: note: in a call to function ‘int strcmp(const char*, const char*)’ declared ‘nonnull’
  156 | extern int strcmp (const char *__s1, const char *__s2)
      |            ^~~~~~
trees.cxx: In function ‘void run_phyml_callback(Fl_Widget*, void*)’:
trees.cxx:1177:56: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 995 [-Wformat-overflow=]
 1177 |                    sprintf(args + strlen(args), " -u \"%s\"", tmp);
      |                                                        ^~     ~~~
In function ‘int sprintf(char*, const char*, ...)’,
    inlined from ‘void run_phyml_callback(Fl_Widget*, void*)’ at trees.cxx:1177:13:
/usr/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 4102 bytes into a destination of size 1000
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF threads.cxx
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF tbe.cxx
tbe.cxx: In function ‘char* TBE_Compute(char*, char*)’:
tbe.cxx:85:16: warning: pointer ‘ref_branches’ used after ‘void free(void*)’ [-Wuse-after-free]
   85 |   TBE_PrintTree(newtree,fd_reftree,ref_branches, nboot);
      |   ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
tbe.cxx:83:7: note: call to ‘void free(void*)’ here
   83 |   free(ref_branches);
      |   ~~~~^~~~~~~~~~~~~~
trees.cxx: In function ‘void command_line_phylogeny(int, char**)’:
trees.cxx:2838:3: warning: ‘tree’ may be used uninitialized [-Wmaybe-uninitialized]
 2838 |   if (tree) {
      |   ^~
trees.cxx:2741:9: note: ‘tree’ was declared here
 2741 |   char *tree, *p;
      |         ^~~~
g++ -c   -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF treerecs_draw.cxx
g++ -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF FL/Fl_SVG_Image.cxx
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/raa_acnuc.c
csrc/raa_acnuc.c: In function ‘raa_bit1’:
csrc/raa_acnuc.c:1083:7: warning: variable ‘reponse’ set but not used [-Wunused-but-set-variable]
 1083 | char *reponse;
      |       ^~~~~~~
csrc/raa_acnuc.c: In function ‘raa_bit0’:
csrc/raa_acnuc.c:1093:7: warning: variable ‘reponse’ set but not used [-Wunused-but-set-variable]
 1093 | char *reponse;
      |       ^~~~~~~
csrc/raa_acnuc.c: In function ‘raa_copylist’:
csrc/raa_acnuc.c:1114:7: warning: variable ‘reponse’ set but not used [-Wunused-but-set-variable]
 1114 | char *reponse;
      |       ^~~~~~~
csrc/raa_acnuc.c: In function ‘raa_zerolist’:
csrc/raa_acnuc.c:1124:7: warning: variable ‘reponse’ set but not used [-Wunused-but-set-variable]
 1124 | char *reponse;
      |       ^~~~~~~
csrc/raa_acnuc.c: In function ‘raa_setliststate’:
csrc/raa_acnuc.c:1134:7: warning: variable ‘reponse’ set but not used [-Wunused-but-set-variable]
 1134 | char *reponse, str_type[3];
      |       ^~~~~~~
treerecs_draw.cxx: In function ‘void treerecs_dialog(Fl_Widget*, void*)’:
treerecs_draw.cxx:489:20: warning: unused variable ‘recphylowml_window’ [-Wunused-variable]
  489 |         Fl_Window* recphylowml_window =
      |                    ^~~~~~~~~~~~~~~~~~
treerecs_draw.cxx:455:9: warning: unused variable ‘status’ [-Wunused-variable]
  455 |     int status =
      |         ^~~~~~
treerecs_draw.cxx: In member function ‘virtual void Fl_SVG_Box::draw()’:
treerecs_draw.cxx:654:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  654 |     while(i < svgtexts_size){
      |           ~~^~~~~~~~~~~~~~~
treerecs_draw.cxx: In constructor ‘Fl_SVG_Box::Fl_SVG_Box(int, int, int, int, const char*)’:
treerecs_draw.cxx:738:10: warning: ‘Fl_SVG_Box::zoom’ will be initialized after [-Wreorder]
  738 |   double zoom;
      |          ^~~~
treerecs_draw.cxx:736:10: warning:   ‘double Fl_SVG_Box::svg_shift_x’ [-Wreorder]
  736 |   double svg_shift_x;
      |          ^~~~~~~~~~~
treerecs_draw.cxx:686:13: warning:   when initialized here [-Wreorder]
  686 |   FL_EXPORT Fl_SVG_Box(int x, int y, int w, int h, const char* filename) :
      |             ^~~~~~~~~~
treerecs_draw.cxx:737:10: warning: ‘Fl_SVG_Box::svg_shift_y’ will be initialized after [-Wreorder]
  737 |   double svg_shift_y;
      |          ^~~~~~~~~~~
treerecs_draw.cxx:733:16: warning:   ‘unsigned int Fl_SVG_Box::svgtexts_size’ [-Wreorder]
  733 |   unsigned int svgtexts_size;
      |                ^~~~~~~~~~~~~
treerecs_draw.cxx:686:13: warning:   when initialized here [-Wreorder]
  686 |   FL_EXPORT Fl_SVG_Box(int x, int y, int w, int h, const char* filename) :
      |             ^~~~~~~~~~
treerecs_draw.cxx: In destructor ‘virtual Fl_SVG_Box::~Fl_SVG_Box()’:
treerecs_draw.cxx:722:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  722 |     for(int i = 0; i < svgtexts_size ; i++) {
      |                    ~~^~~~~~~~~~~~~~~
treerecs_draw.cxx: In constructor ‘SVG_View_data::SVG_View_data()’:
treerecs_draw.cxx:762:15: warning: ‘SVG_View_data::reconciliation_score_message’ will be initialized after [-Wreorder]
  762 |   const char* reconciliation_score_message;
      |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
treerecs_draw.cxx:759:9: warning:   ‘float SVG_View_data::total_cost’ [-Wreorder]
  759 |   float total_cost;
      |         ^~~~~~~~~~
treerecs_draw.cxx:764:3: warning:   when initialized here [-Wreorder]
  764 |   SVG_View_data() :
      |   ^~~~~~~~~~~~~
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/parser.c
FL/Fl_SVG_Image.cxx: In function ‘char* svg_inflate(const char*)’:
FL/Fl_SVG_Image.cxx:87:20: warning: pointer ‘out’ used after ‘void* realloc(void*, size_t)’ [-Wuse-after-free]
   87 |       p = tmp + (p - out);
      |                  ~~^~~~~
FL/Fl_SVG_Image.cxx:86:33: note: call to ‘void* realloc(void*, size_t)’ here
   86 |       char *tmp = (char*)realloc(out, out_size + 1);
      |                          ~~~~~~~^~~~~~~~~~~~~~~~~~~
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/md5.c
csrc/md5.c:200:34: warning: argument 1 of type ‘uint32[4]’ {aka ‘unsigned int[4]’} with mismatched bound [-Warray-parameter=]
  200 | static void MD5_Transform(uint32 buf[4], uint32 const in[16])
      |                           ~~~~~~~^~~~~~
csrc/md5.c:47:35: note: previously declared as ‘uint32 *’ {aka ‘unsigned int *’}
   47 | static void MD5_Transform(uint32 *buf, uint32 const *in);
      |                           ~~~~~~~~^~~
csrc/md5.c:200:55: warning: argument 2 of type ‘const uint32[16]’ {aka ‘const unsigned int[16]’} with mismatched bound [-Warray-parameter=]
  200 | static void MD5_Transform(uint32 buf[4], uint32 const in[16])
      |                                          ~~~~~~~~~~~~~^~~~~~
csrc/md5.c:47:54: note: previously declared as ‘const uint32 *’ {aka ‘const unsigned int *’}
   47 | static void MD5_Transform(uint32 *buf, uint32 const *in);
      |                                        ~~~~~~~~~~~~~~^~
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/zsockr.c
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/misc_acnuc.c
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/dnapars.c
csrc/dnapars.c: In function ‘dnapars’:
csrc/dnapars.c:1685:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 1685 |     fread(tree, L, 1, outtree);
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~~
csrc/dnapars.c: At top level:
csrc/dnapars.c:112:17: warning: ‘names’ defined but not used [-Wunused-variable]
  112 | static boolean *names;
      |                 ^~~~~
csrc/dnapars.c:108:16: warning: ‘nothing’ defined but not used [-Wunused-variable]
  108 | static baseptr nothing;
      |                ^~~~~~~
csrc/dnapars.c:81:6: warning: ‘weightfilename’ defined but not used [-Wunused-variable]
   81 |      weightfilename[FNMLNGTH];
      |      ^~~~~~~~~~~~~~
csrc/dnapars.c:80:58: warning: ‘intreename’ defined but not used [-Wunused-variable]
   80 | static Char infilename[FNMLNGTH], outfilename[FNMLNGTH], intreename[FNMLNGTH], *outtreename,
      |                                                          ^~~~~~~~~~
csrc/dnapars.c:80:35: warning: ‘outfilename’ defined but not used [-Wunused-variable]
   80 | static Char infilename[FNMLNGTH], outfilename[FNMLNGTH], intreename[FNMLNGTH], *outtreename,
      |                                   ^~~~~~~~~~~
csrc/dnapars.c:80:13: warning: ‘infilename’ defined but not used [-Wunused-variable]
   80 | static Char infilename[FNMLNGTH], outfilename[FNMLNGTH], intreename[FNMLNGTH], *outtreename,
      |             ^~~~~~~~~~
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/protpars.c
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/seq.c
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/phylip.c
csrc/protpars.c: In function ‘protpars’:
csrc/protpars.c:2097:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
 2097 |     fread(tree, L, 1, outtree);
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~~
csrc/protpars.c: At top level:
csrc/protpars.c:129:12: warning: ‘tmpa’ defined but not used [-Wunused-variable]
  129 | static aas tmpa;
      |            ^~~~
csrc/protpars.c:111:21: warning: ‘inseed0’ defined but not used [-Wunused-variable]
  111 | static long inseed, inseed0;
      |                     ^~~~~~~
csrc/protpars.c:111:13: warning: ‘inseed’ defined but not used [-Wunused-variable]
  111 | static long inseed, inseed0;
      |             ^~~~~~
csrc/protpars.c:107:94: warning: ‘weightfilename’ defined but not used [-Wunused-variable]
  107 | static Char infilename[FNMLNGTH], outfilename[FNMLNGTH], intreename[FNMLNGTH], *outtreename, weightfilename[FNMLNGTH];
      |                                                                                              ^~~~~~~~~~~~~~
csrc/protpars.c:107:58: warning: ‘intreename’ defined but not used [-Wunused-variable]
  107 | static Char infilename[FNMLNGTH], outfilename[FNMLNGTH], intreename[FNMLNGTH], *outtreename, weightfilename[FNMLNGTH];
      |                                                          ^~~~~~~~~~
csrc/protpars.c:107:35: warning: ‘outfilename’ defined but not used [-Wunused-variable]
  107 | static Char infilename[FNMLNGTH], outfilename[FNMLNGTH], intreename[FNMLNGTH], *outtreename, weightfilename[FNMLNGTH];
      |                                   ^~~~~~~~~~~
csrc/protpars.c:107:13: warning: ‘infilename’ defined but not used [-Wunused-variable]
  107 | static Char infilename[FNMLNGTH], outfilename[FNMLNGTH], intreename[FNMLNGTH], *outtreename, weightfilename[FNMLNGTH];
      |             ^~~~~~~~~~
csrc/phylip.c: In function ‘scan_eoln’:
csrc/phylip.c:161:8: warning: variable ‘ch’ set but not used [-Wunused-but-set-variable]
  161 |   char ch;
      |        ^~
csrc/phylip.c: In function ‘stringnames_new’:
csrc/phylip.c:2980:8: warning: variable ‘len’ set but not used [-Wunused-but-set-variable]
 2980 |   long len, i;
      |        ^~~
csrc/seq.c: In function ‘collapsetree’:
csrc/seq.c:4015:11: warning: variable ‘j’ set but not used [-Wunused-but-set-variable]
 4015 |   long i, j, index, index2, numd;
      |           ^
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/lwl.c
csrc/lwl.c: In function ‘prefastlwl’:
csrc/lwl.c:412:1: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
  412 | else
      | ^~~~
csrc/lwl.c:414:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
  414 |         aa[9] = 14;/* agc S */
      |         ^~
csrc/lwl.c:417:1: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
  417 | else
      | ^~~~
csrc/lwl.c:419:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
  419 |         aa[11] = 14;/* agt S */
      |         ^~
csrc/lwl.c:422:1: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
  422 | else
      | ^~~~
csrc/lwl.c:424:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
  424 |         aa[13] = 7;/* atc I */
      |         ^~
csrc/lwl.c:469:1: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation]
  469 | else
      | ^~~~
csrc/lwl.c:471:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’
  471 |         aa[57] = 10;/* tgc */
      |         ^~
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/bionj.c
gcc -c  -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer  -Dunix -Icsrc csrc/phyml_util.c
csrc/phyml_util.c: In function ‘Warn_And_Exit’:
csrc/phyml_util.c:47:9: warning: ignoring return value of ‘fscanf’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
   47 |         fscanf(stdin,"%c",&c);
      |         ^~~~~~~~~~~~~~~~~~~~~
g++ -o seaview  -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes  seaview.o custom.o use_mase_files.o regions.o load_seq.o align.o xfmatpt.o comlines.o resource.o nexus.o viewasprots.o racnuc_fetch.o concatenate.o statistics.o trees.o treedraw.o addbootstrap.o least_squares_brl.o pseudoterminal.o unrooted.o pdf_or_ps.o svg.o threads.o tbe.o treerecs_draw.o Fl_SVG_Image.o raa_acnuc.o parser.o md5.o zsockr.o misc_acnuc.o dnapars.o protpars.o seq.o phylip.o lwl.o bionj.o phyml_util.o  `fltk-config --use-images --ldflags` -ldl -lpthread -lz 
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.89l3bg
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64
++ dirname /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64
+ CFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd seaview
+ rm -rf /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/seaview
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/bin
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64//usr/share/man/man1
+ install -m 755 seaview /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64//usr/bin
+ desktop-file-install --dir /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/applications /builddir/build/SOURCES/seaview.desktop
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/pixmaps/
+ install -m 0644 -p seaview.xpm /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/pixmaps/seaview.xpm
+ install -m 0644 -p seaview.svg /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/pixmaps/seaview.svg
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/appdata/
+ install -m 0644 -p seaview.appdata.xml /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/appdata/seaview.appdata.xml
+ install -m 644 seaview.1 /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64//usr/share/man/man1
+ /usr/bin/find-debuginfo -j4 --strict-build-id -m -i --build-id-seed 5.0-8.fc40 --unique-debug-suffix -5.0-8.fc40.riscv64 --unique-debug-src-base seaview-5.0-8.fc40.riscv64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/seaview
find-debuginfo: starting
Extracting debug info from 1 files
DWARF-compressing 1 files
sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match.
Creating .debug symlinks for symlinks to ELF files
Copying sources found by 'debugedit -l' to /usr/src/debug/seaview-5.0-8.fc40.riscv64
3338 blocks
find-debuginfo: done
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
+ /usr/lib/rpm/brp-remove-la-files
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j4
+ /usr/lib/rpm/redhat/brp-python-hardlink
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.ssMgVb
+ umask 022
+ cd /builddir/build/BUILD
+ CFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Werror=implicit-function-declaration -Werror=implicit-int -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer '
+ export CFLAGS
+ CXXFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer '
+ export CXXFLAGS
+ FFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FFLAGS
+ FCFLAGS='-O2  -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -fasynchronous-unwind-tables -fno-omit-frame-pointer -I/usr/lib64/gfortran/modules '
+ export FCFLAGS
+ VALAFLAGS=-g
+ export VALAFLAGS
+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd seaview
+ RPM_EC=0
Processing files: seaview-5.0-8.fc40.riscv64
++ jobs -p
+ exit 0
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.HDfkUg
+ umask 022
+ cd /builddir/build/BUILD
+ cd seaview
+ DOCDIR=/builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/doc/seaview
+ export LC_ALL=
+ LC_ALL=
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/doc/seaview
+ cp -pr /builddir/build/BUILD/seaview/seaview.1.xml /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/doc/seaview
+ cp -pr /builddir/build/BUILD/seaview/seaview.html /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64/usr/share/doc/seaview
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: application() application(seaview.desktop) metainfo() metainfo(seaview.appdata.xml) seaview = 5.0-8.fc40 seaview(riscv-64) = 5.0-8.fc40
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: ld-linux-riscv64-lp64d.so.1()(64bit) ld-linux-riscv64-lp64d.so.1(GLIBC_2.27)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.27)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libfltk.so.1.3()(64bit) libfltk_images.so.1.3()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.27)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libz.so.1()(64bit) rtld(GNU_HASH)
Processing files: seaview-debugsource-5.0-8.fc40.riscv64
Provides: seaview-debugsource = 5.0-8.fc40 seaview-debugsource(riscv-64) = 5.0-8.fc40
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: seaview-debuginfo-5.0-8.fc40.riscv64
Provides: debuginfo(build-id) = 92985ab81fb01cbdbdae7749a45d791d5bce8824 seaview-debuginfo = 5.0-8.fc40 seaview-debuginfo(riscv-64) = 5.0-8.fc40
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: seaview-debugsource(riscv-64) = 5.0-8.fc40
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/seaview-5.0-8.fc40.riscv64
Wrote: /builddir/build/RPMS/seaview-5.0-8.fc40.riscv64.rpm
Wrote: /builddir/build/RPMS/seaview-debugsource-5.0-8.fc40.riscv64.rpm
Wrote: /builddir/build/RPMS/seaview-debuginfo-5.0-8.fc40.riscv64.rpm
RPM build warnings:
    %patchN is deprecated (1 usages found), use %patch N (or %patch -P N)
Child return code was: 0