Mock Version: 1.4.21
Mock Version: 1.4.21
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target riscv64 --nodeps /builddir/build/SPECS/seaview.spec'], chrootPath='/var/lib/mock/f33-build-139797-42373/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': 'en_US.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x3fd6970700>timeout=432000uid=987gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --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': 'en_US.UTF-8'} and shell False
Building target platforms: riscv64
Building for target riscv64
setting SOURCE_DATE_EPOCH=1582243200
Wrote: /builddir/build/SRPMS/seaview-5.0-1.fc33.src.rpm
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target riscv64 --nodeps /builddir/build/SPECS/seaview.spec'], chrootPath='/var/lib/mock/f33-build-139797-42373/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': 'en_US.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x3fd6970700>timeout=432000uid=987gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --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': 'en_US.UTF-8'} and shell False
Building target platforms: riscv64
Building for target riscv64
setting SOURCE_DATE_EPOCH=1582243200
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.EijKzT
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf seaview
+ /usr/bin/gzip -dc /builddir/build/SOURCES/seaview_5.0.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd seaview
+ /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 -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.PzxZ8V
+ umask 022
+ cd /builddir/build/BUILD
+ cd seaview
+ make -j4
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF seaview.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF custom.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF use_mase_files.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -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;
      |          ^~~~~~
use_mase_files.cxx: In function 'int read_mase_seqs_header(const char*, char***, char***, char***, char**, char**)':
use_mase_files.cxx:215:2: 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:215:62: 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:623:3: warning: this 'while' clause does not guard... [-Wmisleading-indentation]
  623 |   while(*p==' ') p--; *(p+1)=0;
      |   ^~~~~
use_mase_files.cxx:623:23: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while'
  623 |   while(*p==' ') p--; *(p+1)=0;
      |                       ^
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);
      |   ~~~~~~^~~~~
seaview.cxx: In function 'int delete_selected_seqs(SEA_VIEW*)':
seaview.cxx:1770:2: warning: this 'for' clause does not guard... [-Wmisleading-indentation]
 1770 |  for(i = 0, j = 0; i<  view->tot_seqs; i++)
      |  ^~~
seaview.cxx:1773:3: 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:2916:38: 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:871,
                 from seaview.h:3,
                 from regions.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output 16 or more bytes (assuming 4111) into a destination of size 500
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
regions.cxx:343:35: warning: 'last' may be used uninitialized in this function [-Wmaybe-uninitialized]
  343 |  memmove(cmd, last, l + 1 - (last - cmd));
      |                              ~~~~~^~~~~
regions.cxx: In function 'const char* site_mask_creation_dialog(SEA_VIEW*, position_mask*)':
regions.cxx:745:10: warning: 'retval' may be used uninitialized in this function [-Wmaybe-uninitialized]
  745 |   return retval;
      |          ^~~~~~
seaview.cxx: In function 'void help_callback(Fl_Widget*, void*)':
seaview.cxx:3629:12: warning: '%s' directive argument is null [-Wformat-overflow=]
 3629 |    fl_alert(
      |    ~~~~~~~~^
 3630 | #ifdef __APPLE__
      | ~~~~~~~~~~~~~~~~
 3631 |       "No help information in program resources"
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 3632 | #else
      | ~~~~~       
 3633 |       "Help file %s\nnot found in PATH directories nor in current directory", help_file
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 3634 | #endif
      | ~~~~~~      
 3635 |       );
      |       ~     
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:871,
                 from seaview.h:3,
                 from seaview.cxx:67:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 8 and 12 bytes into a destination of size 10
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -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:171:11: warning: 'lpre' may be used uninitialized in this function [-Wmaybe-uninitialized]
  171 |     memcpy(p, header, lpre);
      |     ~~~~~~^~~~~~~~~~~~~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -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 in this function [-Wmaybe-uninitialized]
  521 | l = q - seq[totseqs - 1];
      |     ~~^~~~~~~~~~~~~~~~~~
use_mase_files.cxx: In function 'int read_clustal_align(const char*, char***, char***, char***, char**, char**)':
use_mase_files.cxx:621:9: warning: 'wid_name' may be used uninitialized in this function [-Wmaybe-uninitialized]
  621 |   memcpy(seqname[curr_spec], line, wid_name);
      |   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
use_mase_files.cxx:650:8: warning: 'l' may be used uninitialized in this function [-Wmaybe-uninitialized]
  650 |  memcpy(seq[curr_spec]+curr_len, line + wid_name, l);
      |  ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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:1826:16: warning: 'vary_pos' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1826 |    vary_pos[k++] = current + i + 1;
      |                ^
use_mase_files.cxx:1950:34: warning: 'surface' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1950 |   if (use_pdf || use_svg) delete surface;
      |                                  ^~~~~~~
use_mase_files.cxx:1980:33: warning: 'descender' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1980 |       fl_rectf(xx, y - fontsize + descender, char_width+1, fontsize);
      |                    ~~~~~~~~~~~~~^~~~~~~~~~~
use_mase_files.cxx:1689:35: note: 'descender' was declared here
 1689 |   double char_width = fontsize/2, descender, margin = 25;
      |                                   ^~~~~~~~~
use_mase_files.cxx:1847:33: warning: 'top_margin' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1847 |  if( use_pdf || use_svg) fl_draw(num_line, margin, top_margin + curr_lines * fontsize);
      |                          ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
use_mase_files.cxx:1928:12: warning: 'lines_per_page' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1928 |       else if(curr_lines + 1 <= lines_per_page) {
      |            ^~
align.cxx: In function 'void replace_stars(char*)':
align.cxx:1302:7: 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);
      |  ~~~~~^~~~~~~~~~~~~~~
In file included from /usr/include/string.h:495,
                 from seaview.h:5,
                 from seaview.cxx:67:
In function 'char* strncpy(char*, const char*, size_t)',
    inlined from 'void goto_callback(Fl_Widget*, void*)' at seaview.cxx:2745:9:
/usr/include/bits/string_fortified.h:106:34: warning: 'char* __builtin___strncpy_chk(char*, const char*, long unsigned int, long unsigned int)' specified bound depends on the length of the source argument [-Wstringop-overflow=]
  106 |   return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest));
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
seaview.cxx: In function 'void goto_callback(Fl_Widget*, void*)':
seaview.cxx:2743:12: note: length computed here
 2743 |  l = strlen(p);
      |      ~~~~~~^~~
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:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 11 and 21 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __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 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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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, 2147483647]
  973 |   sprintf(tmp, "%d", reponse);
      |                ^~~~
In file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 2 and 11 bytes into a destination of size 5
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 11 and 21 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
align.cxx:835:32: 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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 11 and 21 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
align.cxx:840:32: 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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 11 and 21 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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 [-2147483646, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF xfmatpt.cxx
use_mase_files.cxx: In function 'void format_conversion(int, char**)':
use_mase_files.cxx:2270:20: warning: 'current_seg' may be used uninitialized in this function [-Wmaybe-uninitialized]
 2270 |  current_seg->next = seg;
      |  ~~~~~~~~~~~~~~~~~~^~~~~
seaview.cxx: In function 'void del_gap_only_sites(SEA_VIEW*)':
seaview.cxx:1707:9: warning: 'debut' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1707 |   count = position - debut;
      |   ~~~~~~^~~~~~~~~~~~~~~~~~
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);
      |                                ^~
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __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);
      |                                ^~
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __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);
      |                                ^~
align.cxx:991:18: note: directive argument in the range [-2147483647, 2147483647]
  991 | sprintf(resname, "msa_opt_args_%d", algonum + 1);
      |                  ^~~~~~~~~~~~~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF comlines.cxx
In file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
seaview.cxx: In function 'int delete_selected_seqs(SEA_VIEW*)':
seaview.cxx:1779:16: warning: 'temp_int' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1779 |    temp_int[j++]= view->list_species_sets[numset][i];
      |                ^
seaview.cxx:1747:42: warning: 'temp_data' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1747 |   if( ! view->sel_seqs[i] ) temp_data[j++] = (void *) viewasprots[i];
      |                                          ^
align.cxx: In function 'int save_fasta_file_no_gaponly(char*, char**, int, int*, int*)':
align.cxx:1345:28: 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:1345:25: note: directive argument in the range [0, 2147483646]
 1345 |   sprintf(seqname[num], "S_%d", num);
      |                         ^~~~~~
In file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 4 and 13 bytes into a destination of size 10
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
align.cxx: In function 'void unalign(SEA_VIEW*)':
align.cxx:1415:56: warning: 'calc_color_function' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1415 |      view->col_rank[num][i] = (char)calc_color_function( res );
      |                                     ~~~~~~~~~~~~~~~~~~~^~~~~~~
align.cxx: In function 'int replace_align_part(SEA_VIEW*, int, int, char*, int, int, int*, align_choice, const char**)':
align.cxx:425:74: warning: 'calc_color_function' may be used uninitialized in this function [-Wmaybe-uninitialized]
  425 |    if (view->col_rank) view->col_rank[num][i] = (char)calc_color_function( res );
      |                                                       ~~~~~~~~~~~~~~~~~~~^~~~~~~
seaview.cxx: In function 'void edit_menu_callback(Fl_Widget*, void*)':
seaview.cxx:2580:10: warning: 'new_pos' may be used uninitialized in this function [-Wmaybe-uninitialized]
 2580 |  new_pos += 2;
      |  ~~~~~~~~^~~~
align.cxx: In function 'void profile_align(SEA_VIEW*)':
align.cxx:1281:62: warning: 'calc_color_function' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1281 |     view->col_rank[table[num]][i] = (char)calc_color_function( res );
      |                                           ~~~~~~~~~~~~~~~~~~~^~~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF resource.cxx
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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from align.cxx:1:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 15 and 25 bytes into a destination of size 20
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
seaview.cxx: In function 'void handle_keyboard(SEA_VIEW*, unsigned int, int)':
seaview.cxx:4630:2: warning: 'count_each' may be used uninitialized in this function [-Wmaybe-uninitialized]
 4630 |  if(count_each == multipl &&
      |  ^~
seaview.cxx:4640:10: warning: 'count' may be used uninitialized in this function [-Wmaybe-uninitialized]
 4640 |  new_pos = view->cursor_site - count;
      |  ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
seaview.cxx:4757:3: warning: 'count_each' may be used uninitialized in this function [-Wmaybe-uninitialized]
 4757 |   if(count_each == multipl &&
      |   ^~
seaview.cxx:4681:2: warning: 'count_each' may be used uninitialized in this function [-Wmaybe-uninitialized]
 4681 |  if(count_each == multipl && view->regions != NULL)
      |  ^~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF nexus.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF viewasprots.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF racnuc_fetch.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF concatenate.cxx
nexus.cxx: In function 'char** process_taxa_taxlabels(FILE*, int)':
nexus.cxx:357:17: warning: 'p' may be used uninitialized in this function [-Wmaybe-uninitialized]
  357 | if(p != NULL && *p != ';') skip_command(in);
      |                 ^~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF statistics.cxx
nexus.cxx: In function 'list_segments* build_list_pairs(FILE*, int)':
nexus.cxx:440:28: warning: 'next' may be used uninitialized in this function [-Wmaybe-uninitialized]
  440 |   debut = next->debut; fin = next->fin;
      |                        ~~~~^~~~~~~~~~~
nexus.cxx: In function 'char** process_block_characters(FILE*, int*, char***, int*, int*)':
nexus.cxx:682:37: warning: 'gap' may be used uninitialized in this function [-Wmaybe-uninitialized]
  682 |    seqs = process_chars_m_interleave(in, *nsites, gap,
      |           ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
  683 |     *pntaxa, *taxnames, FALSE, matchchar, missing, *protein);
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
concatenate.cxx: In function 'void concatenate(SEA_VIEW*, SEA_VIEW*, bool, bool, bool)':
concatenate.cxx:114:25: warning: 'gaps' may be used uninitialized in this function [-Wmaybe-uninitialized]
  114 |         add_seq_to_align(target, source->seqname[i], gaps, target_length, no_gui);
      |         ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
concatenate.cxx:124:32: warning: 'found' may be used uninitialized in this function [-Wmaybe-uninitialized]
  124 |       if (want_addgaps) found[j] = TRUE;
      |                                ^
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF trees.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF treedraw.cxx
statistics.cxx: In function 'void geni_act(SEA_VIEW*)':
statistics.cxx:366:55: warning: 'compgroupall' may be used uninitialized in this function [-Wmaybe-uninitialized]
  366 |   double **comp, *compall, compcomp[4], **compgroup, *compgroupall, min[4], max[4];
      |                                                       ^~~~~~~~~~~~
statistics.cxx:366:43: warning: 'compgroup' may be used uninitialized in this function [-Wmaybe-uninitialized]
  366 |   double **comp, *compall, compcomp[4], **compgroup, *compgroupall, min[4], max[4];
      |                                           ^~~~~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -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:1577:9: 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:1719:9: 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);
      |           ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF least_squares_brl.cxx
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);
      |       ~~~~~^~~~~~~~~~~~~~~~~
least_squares_brl.cxx: In function 'int tree_btos(int**, int, double*, double*, double*, char**, noeud2**)':
least_squares_brl.cxx:374:27: warning: 'tax2' may be used uninitialized in this function [-Wmaybe-uninitialized]
  374 |   p2 = bottomnode(arbre_s[tax2]);
      |                           ^~~~
least_squares_brl.cxx:373:27: warning: 'tax1' may be used uninitialized in this function [-Wmaybe-uninitialized]
  373 |   p1 = bottomnode(arbre_s[tax1]);
      |                           ^~~~
least_squares_brl.cxx:349:3: warning: 'sommebi' may be used uninitialized in this function [-Wmaybe-uninitialized]
  349 |   if (sommebi == 2) {
      |   ^~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF pseudoterminal.cxx
addbootstrap.cxx: In function 'char* compute_consensus_tree(char**, int**, int)':
addbootstrap.cxx:895:7: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized]
  895 |       if (k < height) { // columns were not all identical, try columns on 0-side of branch i
      |       ^~
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:2375:40: 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);
      |                                        ^~
trees.cxx:2375:18: note: directive argument in the range [1, 2147483647]
 2375 |     sprintf(tmp, "Bootstrap replicate: %d", j + 1);
      |                  ^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from trees.cxx:6:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 23 and 32 bytes into a destination of size 30
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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 file included from /usr/include/stdio.h:871,
                 from seaview.h:3,
                 from trees.cxx:6:
/usr/include/bits/stdio2.h:36:34: note: '__builtin___sprintf_chk' output between 28 and 37 bytes into a destination of size 35
   36 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   37 |       __bos (__s), __fmt, __va_arg_pack ());
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
trees.cxx:2124:51: warning: 'all_best' may be used uninitialized in this function [-Wmaybe-uninitialized]
 2124 |       if (count > 1) final_tree = add_equally_best(final_tree, all_best, count);
      |                                   ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
trees.cxx:2420:41: warning: 'all_best' may be used uninitialized in this function [-Wmaybe-uninitialized]
 2420 |   if (count > 1) tree = add_equally_best(tree, all_best, count);
      |                         ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
trees.cxx:2353:33: 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:342:11: 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:344:10: 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);
      |   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF unrooted.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF pdf_or_ps.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:520:10: warning: 'display_tree' may be used uninitialized in this function [-Wmaybe-uninitialized]
  520 |   return display_tree;
      |          ^~~~~~~~~~~~
unrooted.cxx: In function 'hit try_angle_draw(float, int*, int*, float*, int, int, int, int)':
unrooted.cxx:634:2: 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:634:27: 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:635:2: 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:635:27: 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:636:2: 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:636:27: 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:637:2: 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:637:27: 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    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF svg.cxx
trees.cxx: In function 'char* replace_tree_names_by_rank(const char*, char**, int)':
trees.cxx:2728:24: warning: 'qstart' may be used uninitialized in this function [-Wmaybe-uninitialized]
 2728 |     q = qstart + strlen(qstart);
      |                  ~~~~~~^~~~~~~~
trees.cxx: In function 'void command_line_phylogeny(int, char**)':
trees.cxx:2841:11: warning: 'tree' may be used uninitialized in this function [-Wmaybe-uninitialized]
 2841 |     fwrite(tree, strlen(tree), 1, out);
      |     ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
unrooted.cxx: In function 'int set_angles_noeuds(bignoeud*, bignoeud*, double, double*, double)':
unrooted.cxx:1121:66: warning: 'poids2' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1121 |   debut->position.angle = (poids1*angle1 + poids2*angle2)/(poids1+poids2);
      |                                                           ~~~~~~~^~~~~~~~
unrooted.cxx:1121:66: warning: 'poids1' may be used uninitialized in this function [-Wmaybe-uninitialized]
unrooted.cxx:1128:9: warning: 'poids' may be used uninitialized in this function [-Wmaybe-uninitialized]
 1128 |  return poids;
      |         ^~~~~
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:137:12: note: in a call to function 'int strcmp(const char*, const char*)' declared here
  137 | 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) {
      |                                              ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
In file included from seaview.h:5,
                 from treedraw.h:4,
                 from treedraw.cxx:18:
/usr/include/string.h:137:12: note: in a call to function 'int strcmp(const char*, const char*)' declared here
  137 | 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) {
      |                                                                                   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
In file included from seaview.h:5,
                 from treedraw.h:4,
                 from treedraw.cxx:18:
/usr/include/string.h:137:12: note: in a call to function 'int strcmp(const char*, const char*)' declared here
  137 | extern int strcmp (const char *__s1, const char *__s2)
      |            ^~~~~~
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF threads.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF tbe.cxx
g++ -c    -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF treerecs_draw.cxx
g++ -c   -Dunix -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection -I.  -Icsrc  -DDEFAULT_HELPFILE=\"/usr/share/doc/seaview/seaview.html\" -DPHYMLNAME=\"phyml\" -DNO_PDF FL/Fl_SVG_Image.cxx
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/raa_acnuc.c
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/parser.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];
      |       ^~~~~~~
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/md5.c
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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/zsockr.c
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/misc_acnuc.c
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -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);
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~~
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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/protpars.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);
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~~
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];
      |             ^~~~~~~~~~
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/seq.c
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/phylip.c
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;
      |           ^
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;
      |        ^~~
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -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:414:2: 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:419:2: 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:424:2: 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:471:2: 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 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/bionj.c
gcc -c  -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fasynchronous-unwind-tables -fstack-clash-protection  -Dunix -Icsrc csrc/phyml_util.c
csrc/phyml_util.c: In function 'Warn_And_Exit':
csrc/phyml_util.c:47:2: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result]
   47 |  fscanf(stdin,"%c",&c);
      |  ^~~~~~~~~~~~~~~~~~~~~
g++ -o seaview   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.fJ0jYT
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64
++ dirname /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64
+ cd seaview
+ rm -rf /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/seaview
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/bin
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64//usr/share/man/man1
+ install -m 755 seaview /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64//usr/bin
+ desktop-file-install --dir /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/applications /builddir/build/SOURCES/seaview.desktop
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/pixmaps/
+ install -m 0644 -p seaview.xpm /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/pixmaps/seaview.xpm
+ install -m 0644 -p seaview.svg /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/pixmaps/seaview.svg
+ mkdir -p /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/appdata/
+ install -m 0644 -p seaview.appdata.xml /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/appdata/seaview.appdata.xml
+ install -m 644 seaview.1 /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64//usr/share/man/man1
+ /usr/lib/rpm/find-debuginfo.sh -j4 --strict-build-id -m -i --build-id-seed 5.0-1.fc33 --unique-debug-suffix -5.0-1.fc33.riscv64 --unique-debug-src-base seaview-5.0-1.fc33.riscv64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/seaview
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/bin/seaview
extracting debug info from /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/bin/seaview
original debug info size: 4644kB, size after compression: 4308kB
/usr/lib/rpm/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match.
3338 blocks
+ /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/redhat/brp-python-bytecompile /usr/bin/python 1 0
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.ayzLNT
+ umask 022
+ cd /builddir/build/BUILD
+ cd seaview
+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: seaview-5.0-1.fc33.riscv64
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.JDptZU
+ umask 022
+ cd /builddir/build/BUILD
+ cd seaview
+ DOCDIR=/builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/doc/seaview
+ export LC_ALL=C
+ LC_ALL=C
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/doc/seaview
+ cp -pr seaview.1.xml /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/doc/seaview
+ cp -pr seaview.html /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64/usr/share/doc/seaview
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: application() application(seaview.desktop) metainfo() metainfo(seaview.appdata.xml) seaview = 5.0-1.fc33 seaview(riscv-64) = 5.0-1.fc33
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) libdl.so.2()(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) libpthread.so.0()(64bit) libpthread.so.0(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) libz.so.1()(64bit) rtld(GNU_HASH)
Processing files: seaview-debugsource-5.0-1.fc33.riscv64
Provides: seaview-debugsource = 5.0-1.fc33 seaview-debugsource(riscv-64) = 5.0-1.fc33
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: seaview-debuginfo-5.0-1.fc33.riscv64
Provides: debuginfo(build-id) = eb508a1c69016e5543b016b150510e5342b92759 seaview-debuginfo = 5.0-1.fc33 seaview-debuginfo(riscv-64) = 5.0-1.fc33
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: seaview-debugsource(riscv-64) = 5.0-1.fc33
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64
Wrote: /builddir/build/RPMS/seaview-5.0-1.fc33.riscv64.rpm
Wrote: /builddir/build/RPMS/seaview-debugsource-5.0-1.fc33.riscv64.rpm
Wrote: /builddir/build/RPMS/seaview-debuginfo-5.0-1.fc33.riscv64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.Qnz1EU
+ umask 022
+ cd /builddir/build/BUILD
+ cd seaview
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/seaview-5.0-1.fc33.riscv64
+ RPM_EC=0
++ jobs -p
+ exit 0
Child return code was: 0