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fasta_list - fasta-36.3.8g: dropnnw2.c:578:18: error: 'OVERFLOW' undeclared (first use in this function); did you mean 'OVERFLOW_SCORE'?

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fasta-36.3.8g: dropnnw2.c:578:18: error: 'OVERFLOW' undeclared (first use in this function); did you mean 'OVERFLOW_SCORE'?


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  • From: Martin Mokrejs <>
  • To:
  • Subject: fasta-36.3.8g: dropnnw2.c:578:18: error: 'OVERFLOW' undeclared (first use in this function); did you mean 'OVERFLOW_SCORE'?
  • Date: Thu, 28 Jun 2018 19:30:24 +0200

Hi,
I get this error not only with current release but also with fasta-36.3.5e
. Probably it is related to the too strict gcc-7.3.0 I have. Nevertheless,
would you try to send me a patch? The full build.log file (plaintext) is
attached.

Also, would it be possible to merge the
https://gitweb.gentoo.org/repo/gentoo.git/tree/sci-biology/fasta/files/fasta-36.3.5e-ldflags.patch?id=7d108794dce54cb34c09df68ef26a962c08ad956
into your tree?

Thank you,
Martin
 * Package:    sci-biology/fasta-36.3.8g
 * Repository: gentoo
 * Maintainer: 
 * USE:        abi_x86_64 amd64 cpu_flags_x86_sse2 elibc_glibc kernel_linux userland_GNU
 * FEATURES:   nostrip preserve-libs sandbox splitdebug userpriv usersandbox
 * Package:    sci-biology/fasta-36.3.8g
 * Repository: gentoo
 * Maintainer: 
 * USE:        abi_x86_64 amd64 cpu_flags_x86_sse2 elibc_glibc kernel_linux userland_GNU
 * FEATURES:   nostrip preserve-libs sandbox splitdebug userpriv usersandbox
>>> Unpacking source...
>>> Unpacking fasta-36.3.8g.tar.gz to /scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/work
>>> Source unpacked in /scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/work
>>> Preparing source in /scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/work/fasta-36.3.8g ...
 * Applying fasta-36.3.8g-ldflags.patch ...
 [ ok ]
>>> Source prepared.
>>> Configuring source in /scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/work/fasta-36.3.8g ...
>>> Source configured.
>>> Compiling source in /scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/work/fasta-36.3.8g ...
make -j2 -f ../make/Makefile.linux64_sse2 'CC=x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math' 'HFLAGS=-Wl,-O1 -Wl,--as-needed -o' all 
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DCOMP_THR -DCOMP_MLIB -c comp_lib9.c -o comp_mthr9.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c work_thr2.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c pthr_subs2.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DCOMP_THR  -DCOMP_MLIB -c compacc2e.c -o compacc2_t.o
compacc2e.c: In function 'save_best':
compacc2e.c:2501:80: warning: format '%lld' expects argument of type 'long long int', but argument 19 has type 'off_t {aka long int}' [-Wformat=]
        "%-12s %6d %d %.5f %.5f %4d %4d %4d %2d %2d %4d %4d %4d %2d %2d %5d %8lld\n",
                                                                            ~~~~^
                                                                            %8ld
compacc2e.c:2509:28:
        rbuf_dp->stats_idx, rbuf_dp->mseq->lseek);
                            ~~~~~~~~~~~~~~~~~~~~                                 
compacc2e.c: In function 'save_best2':
compacc2e.c:2685:80: warning: format '%lld' expects argument of type 'long long int', but argument 19 has type 'off_t {aka long int}' [-Wformat=]
        "%-12s %6d %d %.5f %.5f %4d %4d %4d %2d %2d %4d %4d %4d %2d %2d %5d %8lld\n",
                                                                            ~~~~^
                                                                            %8ld
compacc2e.c:2693:28:
        rbuf_dp->stats_idx, rbuf_dp->mseq->lseek);
                            ~~~~~~~~~~~~~~~~~~~~                                 
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c mshowbest.c -o showbest.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c build_ares.c -o build_ares.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c re_getlib.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DCOMP_THR -c mshowalign2.c -o mshowalign2_t.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c htime.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c apam.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c doinit.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTA initfa.c -o init_fa.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DLOCAL_SCORE -c scaleswn.c -o scale_se.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c karlin.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c dropnfa.c -o drop_nfa.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64   -c -o wm_align.o wm_align.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DFASTA -c cal_cons2.c -o calcons_fa.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c nmgetlib.c -o lgetlib.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c mmgetaa.c -o lgetaa_m.o
nmgetlib.c: In function 'agetlib':
nmgetlib.c:598:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(&lm_fd->lline[strlen(lm_fd->lline)],MAX_STR/2,lm_fd->libf);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:600:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(&lm_fd->lline[MAX_STR/2],MAX_STR/2,lm_fd->libf);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:644:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(&lm_fd->lline[strlen(lm_fd->lline)],MAX_STR-strlen(lm_fd->lline),lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:659:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'aranlib':
nmgetlib.c:679:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'qgetlib':
nmgetlib.c:743:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(&lm_fd->lline[strlen(lm_fd->lline)],MAX_STR/2,lm_fd->libf);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:745:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(&lm_fd->lline[MAX_STR/2],MAX_STR/2,lm_fd->libf);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:777:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(&lm_fd->lline[strlen(lm_fd->lline)],MAX_STR-strlen(lm_fd->lline),lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'qranlib':
nmgetlib.c:800:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'lgetlib':
nmgetlib.c:855:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
       fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:893:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'lget_ann':
nmgetlib.c:917:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(desc,sizeof(desc),lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:919:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(desc,sizeof(desc),lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:923:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(acc,sizeof(acc),lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:925:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(acc,sizeof(acc),lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:933:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(ver,sizeof(ver),lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:935:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(ver,sizeof(ver),lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'lranlib':
nmgetlib.c:1009:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1016:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'pgetlib':
nmgetlib.c:1055:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf); /* get the extra line */
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1077:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'pranlib':
nmgetlib.c:1101:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1105:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1107:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1113:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'egetlib':
nmgetlib.c:1197:1: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
 fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'eranlib':
nmgetlib.c:1227:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1232:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1235:56: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   while (lm_fd->lline[0]!='D' || lm_fd->lline[1]!='E') fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
                                                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1242:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'igetlib':
nmgetlib.c:1274:32: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   while (lm_fd->lline[0]==';') fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
                                ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1306:6: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
      fgets(lm_fd->lline,MAX_STR-strlen(lm_fd->lline),lm_fd->libf);
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1310:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'iranlib':
nmgetlib.c:1337:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1348:31: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  while (lm_fd->lline[0]==';') fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
                               ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1357:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'vgetlib':
nmgetlib.c:1396:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1436:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(&lm_fd->lline[strlen(lm_fd->lline)],MAX_STR-strlen(lm_fd->lline),lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1442:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'vranlib':
nmgetlib.c:1469:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1485:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1502:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'gcg_getlib':
nmgetlib.c:1544:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1547:2: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
  fgets(&lm_fd->lline[strlen(lm_fd->lline)],MAX_STR/2,lm_fd->libf);
  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1549:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
       fgets(&lm_fd->lline[strlen(lm_fd->lline)-MAX_STR/2],MAX_STR/2,lm_fd->libf);
       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1569:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread((char *)seqp,(size_t)r_block,(size_t)1,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1584:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c: In function 'gcg_ranlib':
nmgetlib.c:1608:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1618:5: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
     fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nmgetlib.c:1649:3: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result]
   fgets(lm_fd->lline,MAX_STR,lm_fd->libf);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
mmgetaa.c: In function 'load_mmap':
mmgetaa.c:167:63: warning: format '%lld' expects argument of type 'long long int', but argument 3 has type 'fseek_t {aka long int}' [-Wformat=]
     fprintf(stderr,"\n *** Warning *** database too large (%lld) for 32-bit mmap()\n",f_size);
                                                            ~~~^
                                                            %ld
mmgetaa.c:205:41: warning: format '%lld' expects argument of type 'long long int', but argument 4 has type '__off_t {aka long int}' [-Wformat=]
       fprintf(stderr," %s file size (%lld) and expected size (%lld) don't match\n",
                                      ~~~^
                                      %ld
        bname,statbuf.st_size,f_size);
              ~~~~~~~~~~~~~~~             
mmgetaa.c:205:66: warning: format '%lld' expects argument of type 'long long int', but argument 5 has type 'fseek_t {aka long int}' [-Wformat=]
       fprintf(stderr," %s file size (%lld) and expected size (%lld) don't match\n",
                                                               ~~~^
                                                               %ld
mmgetaa.c:296:41: warning: format '%lld' expects argument of type 'long long int', but argument 4 has type '__off_t {aka long int}' [-Wformat=]
       fprintf(stderr," %s file size (%lld) and expected size (%lld) don't match\n",
                                      ~~~^
                                      %ld
        sname,statbuf.st_size,f_size);
              ~~~~~~~~~~~~~~~             
mmgetaa.c:296:66: warning: format '%lld' expects argument of type 'long long int', but argument 5 has type 'fseek_t {aka long int}' [-Wformat=]
       fprintf(stderr," %s file size (%lld) and expected size (%lld) don't match\n",
                                                               ~~~^
                                                               %ld
mmgetaa.c: In function 'check_mmap':
mmgetaa.c:1077:31: warning: format '%lld' expects argument of type 'long long int', but argument 4 has type 'MM_OFF {aka long int}' [-Wformat=]
       fprintf(stderr,"%d:\t%lld\t%lld\t%lld\n",
                            ~~~^
                            %ld
        i,m_fd->d_pos_arr[i],m_fd->s_pos_arr[i],
          ~~~~~~~~~~~~~~~~~~    
mmgetaa.c:1077:37: warning: format '%lld' expects argument of type 'long long int', but argument 5 has type 'MM_OFF {aka long int}' [-Wformat=]
       fprintf(stderr,"%d:\t%lld\t%lld\t%lld\n",
                                  ~~~^
                                  %ld
        i,m_fd->d_pos_arr[i],m_fd->s_pos_arr[i],
                             ~~~~~~~~~~~~~~~~~~
mmgetaa.c:1077:43: warning: format '%lld' expects argument of type 'long long int', but argument 6 has type 'MM_OFF {aka long int}' [-Wformat=]
       fprintf(stderr,"%d:\t%lld\t%lld\t%lld\n",
                                        ~~~^
                                        %ld
mmgetaa.c:1079:8:
        m_fd->d_pos_arr[i+1]-m_fd->s_pos_arr[i]);
        ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c c_dispn.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c ncbl2_mlib.c -o ncbl2_mlib.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c lib_sel.c
ncbl2_mlib.c: In function 'ncbl2_getliba':
ncbl2_mlib.c:1087:59: warning: format '%lld' expects argument of type 'long long int', but argument 3 has type 'fseek_t {aka long int}' [-Wformat=]
       fprintf(stderr," could not read sequence record: %lld %ld != %ld\n",
                                                        ~~~^
                                                        %ld
        *libpos,tmp,seq_len);
        ~~~~~~~                                             
ncbl2_mlib.c:1132:48: warning: format '%lld' expects argument of type 'long long int', but argument 4 has type 'fseek_t {aka long int}' [-Wformat=]
 error: fprintf(stderr," error reading %s at %lld\n",libstr,*libpos);
                                             ~~~^           ~~~~~~~
                                             %ld
ncbl2_mlib.c: In function 'ncbl2_getlibn':
ncbl2_mlib.c:1416:43: warning: format '%lld' expects argument of type 'long long int', but argument 4 has type 'fseek_t {aka long int}' [-Wformat=]
   " could not read sequence record: %s %lld %ld != %ld: %d\n",
                                        ~~~^
                                        %ld
   libstr,*libpos,tmp,seqcnt,*seq);
          ~~~~~~~                           
ncbl2_mlib.c:1436:54: warning: format '%lld' expects argument of type 'long long int', but argument 3 has type 'fseek_t {aka long int}' [-Wformat=]
  fprintf(stderr," could not read sequence record: %lld %ld/%ld\n",
                                                   ~~~^
                                                   %ld
   *libpos,tmp,seqcnt);
   ~~~~~~~                                             
ncbl2_mlib.c:1660:48: warning: format '%lld' expects argument of type 'long long int', but argument 4 has type 'fseek_t {aka long int}' [-Wformat=]
 error: fprintf(stderr," error reading %s at %lld\n",libstr,*libpos);
                                             ~~~^           ~~~~~~~
                                             %ld
ncbl2_mlib.c: In function 'load_ncbl2':
ncbl2_mlib.c:804:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
     fread(title_str,(size_t)1,(size_t)title_len,ifile);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c:814:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
     fread(date_str,(size_t)1,(size_t)date_len,ifile);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c: In function 'ncbl2_ranlib':
ncbl2_mlib.c:1702:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
     fread(str,(size_t)1,(size_t)(llen),m_fd->hfile);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c:1717:5: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
     fread(my_buff,(size_t)1,llen,m_fd->hfile);
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c: In function 'src_int4_read':
ncbl2_mlib.c:1823:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread((char *)&b[0],(size_t)1,(size_t)4,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c: In function 'src_long4_read':
ncbl2_mlib.c:1838:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread((char *)&b[0],(size_t)1,(size_t)4,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c: In function 'src_uint4_read':
ncbl2_mlib.c:1851:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread((char *)&b[0],(size_t)1,(size_t)4,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c: In function 'src_long8_read':
ncbl2_mlib.c:1866:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread((char *)&b[0],(size_t)1,(size_t)8,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c: In function 'ncbi_long8_read':
ncbl2_mlib.c:1886:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread((char *)&b[0],(size_t)1,(size_t)8,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c: In function 'src_char_read':
ncbl2_mlib.c:1893:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread(val,(size_t)1,(size_t)1,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ncbl2_mlib.c: In function 'src_fstr_read':
ncbl2_mlib.c:1898:3: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
   fread(val,(size_t)slen,(size_t)1,fd);
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c url_subs.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64   -c -o mrandom.o mrandom.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DSW_SSE2 -DSSEARCH initfa.c -o init_sw_sse.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DSW_SSE2 -c dropgsw2.c -o dropgsw2_sse.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DSW_SSE2 -c smith_waterman_sse2.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c wm_align.c -o lwm_align.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DSSEARCH -c cal_cons2.c -o calcons_sw.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c pssm_asn_subs.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DCOMP_MLIB -c comp_lib9.c -o comp_mlib9.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DCOMP_MLIB -c compacc2e.c -o compacc2_s.o
compacc2e.c: In function 'save_best':
compacc2e.c:2501:80: warning: format '%lld' expects argument of type 'long long int', but argument 19 has type 'off_t {aka long int}' [-Wformat=]
        "%-12s %6d %d %.5f %.5f %4d %4d %4d %2d %2d %4d %4d %4d %2d %2d %5d %8lld\n",
                                                                            ~~~~^
                                                                            %8ld
compacc2e.c:2509:28:
        rbuf_dp->stats_idx, rbuf_dp->mseq->lseek);
                            ~~~~~~~~~~~~~~~~~~~~                                 
compacc2e.c: In function 'save_best2':
compacc2e.c:2685:80: warning: format '%lld' expects argument of type 'long long int', but argument 19 has type 'off_t {aka long int}' [-Wformat=]
        "%-12s %6d %d %.5f %.5f %4d %4d %4d %2d %2d %4d %4d %4d %2d %2d %5d %8lld\n",
                                                                            ~~~~^
                                                                            %8ld
compacc2e.c:2693:28:
        rbuf_dp->stats_idx, rbuf_dp->mseq->lseek);
                            ~~~~~~~~~~~~~~~~~~~~                                 
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DLALIGN -c mshowalign2.c -o lshowalign.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DLALIGN initfa.c -o init_lal.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c last_thresh.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DLALIGN -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DSW_SSE2 -c dropgsw2.c -o droplal2_sse.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c lsim4.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DLALIGN -DLCAL_CONS -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c cal_cons2.c -o calcons_la.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTS initfa.c -o init_fs.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c scaleswt.c -o scaleswts.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c last_tat.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTS tatstats.c -o tatstats_fs.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DFASTS -c dropfs2.c -o drop_fs2.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DFASTS -c cal_consf.c -o calcons_fs.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTX initfa.c -o init_fx.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c faatran.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c dropfx2.c -o drop_fx.o
dropfx2.c: In function 'init_update_data':
dropfx2.c:3618:1: warning: type of 'show_code' defaults to 'int' [-Wimplicit-int]
 init_update_data(show_code) {
 ^~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTX -DTFAST initfa.c -o init_tfx.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DTFAST dropfx2.c -o drop_tfx.o
dropfx2.c: In function 'init_update_data':
dropfx2.c:3618:1: warning: type of 'show_code' defaults to 'int' [-Wimplicit-int]
 init_update_data(show_code) {
 ^~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTY initfa.c -o init_fy.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c dropfz3.c -o drop_fz.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTY -DTFAST initfa.c -o init_tfy.o
dropfz3.c: In function 'init_update_data':
dropfz3.c:3598:1: warning: type of 'show_code' defaults to 'int' [-Wimplicit-int]
 init_update_data(show_code) {
 ^~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DTFAST dropfz3.c -o drop_tfz.o
dropfz3.c: In function 'init_update_data':
dropfz3.c:3598:1: warning: type of 'show_code' defaults to 'int' [-Wimplicit-int]
 init_update_data(show_code) {
 ^~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTS -DTFAST  initfa.c -o init_tfs.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DTFAST -DFASTS dropfs2.c -o drop_tfs.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DTFAST -DFASTS -c cal_consf.c -o calcons_tfs.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTM initfa.c -o init_fm.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTM tatstats.c -o tatstats_fm.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTM dropfs2.c -o drop_fm.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DFASTM -c cal_consf.c -o calcons_fm.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c mshowalign2.c -o mshowalign2_s.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTM -DTFAST  initfa.c -o init_tfm.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DTFAST -DFASTM dropfs2.c -o drop_tfm.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DTFAST -DFASTM -c cal_consf.c -o calcons_tfm.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTF initfa.c -o init_ff.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DFASTF -c scaleswt.c -o scaleswtf.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTF tatstats.c -o tatstats_ff.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTF  dropff2.c -o drop_ff2.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DFASTF -c cal_consf.c -o calcons_ff.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTF -DTFAST initfa.c -o init_tf.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DFASTF -DTFAST dropff2.c -o drop_tff.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -DTFAST -DFASTF -c cal_consf.c -o calcons_tff.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DNORMAL_DIST -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c scaleswn.c -o scale_sn.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c -DSW_SSE2 -DGLSEARCH initfa.c -o init_lnw_sse.o
x86_64-pc-linux-gnu-gcc -O2 -pipe -mpclmul -mpopcnt -march=native -ftree-vectorize -msse2 -ffast-math  -DSW_SSE2 -DSHOW_HELP -DSHOWSIM -DUNIX -DTIMES -DHZ=100 -DMAX_WORKERS=8 -DTHR_EXIT=pthread_exit  -DM10_CONS  -D_REENTRANT -DHAS_INTTYPES -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DUSE_FSEEKO -DSAMP_STATS -DPGM_DOC -DUSE_MMAP  -D_LARGEFILE64_SOURCE  -DBIG_LIB64 -c dropnnw2.c -o droplnw_sse.o
dropnnw2.c: In function 'do_work':
dropnnw2.c:578:18: error: 'OVERFLOW' undeclared (first use in this function); did you mean 'OVERFLOW_SCORE'?
     if (score == OVERFLOW) {
                  ^~~~~~~~
                  OVERFLOW_SCORE
dropnnw2.c:578:18: note: each undeclared identifier is reported only once for each function it appears in
make: *** [../make/Makefile.fcom:244: droplnw_sse.o] Error 1
make: *** Waiting for unfinished jobs....
 * ERROR: sci-biology/fasta-36.3.8g::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-biology/fasta-36.3.8g::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-biology/fasta-36.3.8g::gentoo'`.
 * The complete build log is located at '/scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/temp/build.log'.
 * The ebuild environment file is located at '/scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/temp/environment'.
 * Working directory: '/scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/work/fasta-36.3.8g/src'
 * S: '/scratch/var/tmp/portage/sci-biology/fasta-36.3.8g/work/fasta-36.3.8g'


  • fasta-36.3.8g: dropnnw2.c:578:18: error: 'OVERFLOW' undeclared (first use in this function); did you mean 'OVERFLOW_SCORE'?, Martin Mokrejs, 06/28/2018

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