search

torognes / swipe

Smith-Waterman database searches with inter-sequence SIMD parallelisation
GNU Affero General Public License v3.0
58 stars 21 forks source link

compilation warnings with GCC 7 and GCC 8 #32

Open frederic-mahe opened 6 years ago

frederic-mahe commented 6 years ago 
gcc (GCC) 7.1.0
Copyright (C) 2017 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

asnparse.cc: In function 'void show_seq_id(apt, char*)':
asnparse.cc:610:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void show_seq_id(apt p, char * dbi)
      ^~~~~~~~~~~
asnparse.cc:616:12: note: 'sprintf' output 5 or more bytes (assuming 4101) into a destination of size 2048
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:610:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void show_seq_id(apt p, char * dbi)
      ^~~~~~~~~~~
asnparse.cc:618:12: note: 'sprintf' output 3 or more bytes (assuming 4099) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void show_pat(apt)':
asnparse.cc:626:6: warning: '%s' directive writing up to 2047 bytes into a region of size 2044 [-Wformat-overflow=]
 void show_pat(apt p)
      ^~~~~~~~
asnparse.cc:628:10: note: 'sprintf' output between 8 and 4121 bytes into a destination of size 2048
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    p->pat_country, p->pat_id, p->pat_sequence);
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void parse_seq_id(apt)':
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:616:12: note: 'sprintf' output 5 or more bytes (assuming 4101) into a destination of size 2048
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:618:12: note: 'sprintf' output 3 or more bytes (assuming 4099) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: 'sprintf' may write a terminating nul past the end of the destination [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:690:14: note: 'sprintf' output 2 or more bytes (assuming 2049) into a destination of size 2048
       sprintf(p->id, "%s|%s", db, p->gnl_id_string);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size 2044 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:628:10: note: 'sprintf' output between 8 and 4121 bytes into a destination of size 2048
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    p->pat_country, p->pat_id, p->pat_sequence);
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:708:14: note: 'sprintf' output 3 or more bytes (assuming 4097) into a destination of size 2048
       sprintf(p->id, "%s|%s|%s", db, p->gnl_db, p->gnl_id_string);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:710:14: note: 'sprintf' output 4 or more bytes (assuming 2051) into a destination of size 2048
       sprintf(p->id, "%s|%s|%lu", db, p->gnl_db, p->gnl_id_integer);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:725:12: note: 'sprintf' output 3 or more bytes (assuming 2050) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->pdb_molid, chain);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc (GCC) 7.2.0
Copyright (C) 2017 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

asnparse.cc: In function 'void show_seq_id(apt, char*)':
asnparse.cc:610:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void show_seq_id(apt p, char * dbi)
      ^~~~~~~~~~~
asnparse.cc:616:12: note: 'sprintf' output 5 or more bytes (assuming 4101) into a destination of size 2048
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:610:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void show_seq_id(apt p, char * dbi)
      ^~~~~~~~~~~
asnparse.cc:618:12: note: 'sprintf' output 3 or more bytes (assuming 4099) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void show_pat(apt)':
asnparse.cc:626:6: warning: '%s' directive writing up to 2047 bytes into a region of size 2044 [-Wformat-overflow=]
 void show_pat(apt p)
      ^~~~~~~~
asnparse.cc:628:10: note: 'sprintf' output between 8 and 4121 bytes into a destination of size 2048
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    p->pat_country, p->pat_id, p->pat_sequence);
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void parse_seq_id(apt)':
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:616:12: note: 'sprintf' output 5 or more bytes (assuming 4101) into a destination of size 2048
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:618:12: note: 'sprintf' output 3 or more bytes (assuming 4099) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: 'sprintf' may write a terminating nul past the end of the destination [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:690:14: note: 'sprintf' output 2 or more bytes (assuming 2049) into a destination of size 2048
       sprintf(p->id, "%s|%s", db, p->gnl_id_string);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size 2044 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:628:10: note: 'sprintf' output between 8 and 4121 bytes into a destination of size 2048
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    p->pat_country, p->pat_id, p->pat_sequence);
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:708:14: note: 'sprintf' output 3 or more bytes (assuming 4097) into a destination of size 2048
       sprintf(p->id, "%s|%s|%s", db, p->gnl_db, p->gnl_id_string);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:710:14: note: 'sprintf' output 4 or more bytes (assuming 2051) into a destination of size 2048
       sprintf(p->id, "%s|%s|%lu", db, p->gnl_db, p->gnl_id_integer);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:725:12: note: 'sprintf' output 3 or more bytes (assuming 2050) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->pdb_molid, chain);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc (GCC) 7.3.0
Copyright (C) 2017 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

asnparse.cc: In function 'void show_seq_id(apt, char*)':
asnparse.cc:610:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void show_seq_id(apt p, char * dbi)
      ^~~~~~~~~~~
asnparse.cc:616:12: note: 'sprintf' output 5 or more bytes (assuming 4101) into a destination of size 2048
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:610:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void show_seq_id(apt p, char * dbi)
      ^~~~~~~~~~~
asnparse.cc:618:12: note: 'sprintf' output 3 or more bytes (assuming 4099) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void show_pat(apt)':
asnparse.cc:626:6: warning: '%s' directive writing up to 2047 bytes into a region of size 2044 [-Wformat-overflow=]
 void show_pat(apt p)
      ^~~~~~~~
asnparse.cc:628:10: note: 'sprintf' output between 8 and 4121 bytes into a destination of size 2048
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    p->pat_country, p->pat_id, p->pat_sequence);
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void parse_seq_id(apt)':
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:616:12: note: 'sprintf' output 5 or more bytes (assuming 4101) into a destination of size 2048
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:618:12: note: 'sprintf' output 3 or more bytes (assuming 4099) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: 'sprintf' may write a terminating nul past the end of the destination [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:690:14: note: 'sprintf' output 2 or more bytes (assuming 2049) into a destination of size 2048
       sprintf(p->id, "%s|%s", db, p->gnl_id_string);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '%s' directive writing up to 2047 bytes into a region of size 2044 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:628:10: note: 'sprintf' output between 8 and 4121 bytes into a destination of size 2048
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    p->pat_country, p->pat_id, p->pat_sequence);
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:708:14: note: 'sprintf' output 3 or more bytes (assuming 4097) into a destination of size 2048
       sprintf(p->id, "%s|%s|%s", db, p->gnl_db, p->gnl_id_string);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:710:14: note: 'sprintf' output 4 or more bytes (assuming 2051) into a destination of size 2048
       sprintf(p->id, "%s|%s|%lu", db, p->gnl_db, p->gnl_id_integer);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:632:6: warning: '|' directive writing 1 byte into a region of size between 0 and 2047 [-Wformat-overflow=]
 void parse_seq_id(apt p)
      ^~~~~~~~~~~~
asnparse.cc:725:12: note: 'sprintf' output 3 or more bytes (assuming 2050) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->pdb_molid, chain);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc (GCC) 8.1.0
Copyright (C) 2018 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

matrices.cc: In function 'void score_matrix_read_string(const char*)':
matrices.cc:459:14: warning: 'char* strncpy(char*, const char*, size_t)' output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation]
       strncpy(line, s, linelen);
       ~~~~~~~^~~~~~~~~~~~~~~~~~
matrices.cc:457:18: note: length computed here
  linelen = strlen(s);
            ~~~~~~^~~
asnparse.cc: In function 'void show_seq_id(apt, char*)':
asnparse.cc:618:20: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
                    ^~~~~~~~~~
asnparse.cc:618:12: note: 'sprintf' output 3 or more bytes (assuming 4099) into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:616:20: warning: '%s' directive writing up to 2047 bytes into a region of size between 2045 and 2047 [-Wformat-overflow=]
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
                    ^~~~~~~~~~~~~~
asnparse.cc:616:12: note: 'sprintf' output 5 or more bytes (assuming 4101) into a destination of size 2048
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void show_pat(apt)':
asnparse.cc:628:18: warning: '%s' directive writing up to 2047 bytes into a region of size 2044 [-Wformat-overflow=]
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
                  ^~~~~~~~~~~~~~
asnparse.cc:628:10: note: 'sprintf' output between 8 and 4121 bytes into a destination of size 2048
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    p->pat_country, p->pat_id, p->pat_sequence);
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void parse_seq_id(apt)':
asnparse.cc:725:20: warning: '%s' directive writing up to 2047 bytes into a region of size between 2044 and 2047 [-Wformat-overflow=]
     sprintf(p->id, "%s|%s|%s", db, p->pdb_molid, chain);
                    ^~~~~~~~~~
asnparse.cc:725:12: note: 'sprintf' output between 3 and 2055 bytes into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->pdb_molid, chain);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:710:22: warning: '%s' directive writing up to 2047 bytes into a region of size between 2044 and 2047 [-Wformat-overflow=]
       sprintf(p->id, "%s|%s|%lu", db, p->gnl_db, p->gnl_id_integer);
                      ^~~~~~~~~~~
asnparse.cc:710:14: note: 'sprintf' output between 4 and 2073 bytes into a destination of size 2048
       sprintf(p->id, "%s|%s|%lu", db, p->gnl_db, p->gnl_id_integer);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:708:22: warning: '%s' directive writing up to 2047 bytes into a region of size between 2044 and 2047 [-Wformat-overflow=]
       sprintf(p->id, "%s|%s|%s", db, p->gnl_db, p->gnl_id_string);
                      ^~~~~~~~~~
asnparse.cc:708:14: note: 'sprintf' output between 3 and 4100 bytes into a destination of size 2048
       sprintf(p->id, "%s|%s|%s", db, p->gnl_db, p->gnl_id_string);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:628:18: warning: '%s' directive writing up to 2047 bytes into a region of size 2044 [-Wformat-overflow=]
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
                  ^~~~~~~~~~~~~~
asnparse.cc:628:10: note: 'sprintf' output between 8 and 4121 bytes into a destination of size 2048
   sprintf(p->id, "%s|%s|%s|%lu", p->pat_granted ? "pat" : "pgp",
   ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    p->pat_country, p->pat_id, p->pat_sequence);
    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:618:20: warning: '%s' directive writing up to 2047 bytes into a region of size between 2044 and 2047 [-Wformat-overflow=]
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
                    ^~~~~~~~~~
asnparse.cc:618:12: note: 'sprintf' output between 3 and 4100 bytes into a destination of size 2048
     sprintf(p->id, "%s|%s|%s", db, p->accession, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:616:20: warning: '%s' directive writing up to 2047 bytes into a region of size between 2044 and 2047 [-Wformat-overflow=]
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
                    ^~~~~~~~~~~~~~
asnparse.cc:616:12: note: 'sprintf' output between 5 and 4121 bytes into a destination of size 2048
     sprintf(p->id, "%s|%s.%lu|%s", db, p->accession, p->version, p->name);
     ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc:690:22: warning: '%s' directive writing up to 2047 bytes into a region of size between 2044 and 2047 [-Wformat-overflow=]
       sprintf(p->id, "%s|%s", db, p->gnl_id_string);
                      ^~~~~~~
asnparse.cc:690:14: note: 'sprintf' output between 2 and 2052 bytes into a destination of size 2048
       sprintf(p->id, "%s|%s", db, p->gnl_id_string);
       ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
asnparse.cc: In function 'void parse_blast_def_line(apt)':
asnparse.cc:866:9: warning: 'char* strcat(char*, const char*)' accessing 10241 or more bytes at offsets 36976 and 26736 may overlap 1 byte at offset 36976 [-Wrestrict]
   strcat(p->defline, p->title);
   ~~~~~~^~~~~~~~~~~~~~~~~~~~~~
frederic-mahe commented 6 years ago

There is no warning with GCC 6 or older.