Fwd: Bug installed and compiled Report GNU MCSim (5.5.0)
Arnon Chitsakhon <[email protected]> Sat, 22 Feb 2014 11:49:56 +0700
| Newsgroups | gmane.comp.gnu.mcsim |
|---|---|
| Message-ID | <CAPD2S1Eh2yOVaaF5haX=+Od0Zy7PpUo-f0VW1GBmSSAUz57jYg@mail.gmail.com> |
--===============8598750794314747477== Content-Type: multipart/alternative; boundary=001a11c2e458523c5004f2f7785d --001a11c2e458523c5004f2f7785d Content-Type: text/plain; charset=ISO-8859-1 ---------- Forwarded message ---------- From: "Arnon Chitsakhon" <[email protected]> Date: Feb 22, 2014 11:23 AM Subject: Bug installed and compiled Report GNU MCSim (5.5.0) To: <[email protected]> Cc: "Manupat Lohitnavy" <[email protected]>, "Brad Reisfeld" < [email protected]>, "Kitza Kritsada" <[email protected]> Dear Sir, My name is Arnon. I'm a student from Naresuan University in Thailand. I'm doing my work about PKPB modeling. I'm interested in your GNU MCSim program for my work. I have attempted to install GNU MCSim (5.5.0) on Ubuntu version 12.10 but I found a few bugs when I installed and compiled. I have used the command prompt follow this email install package. ($ represents the Ubuntu command prompt.) I must to very apologize you for the very long E-mail to you first. I hope that you help me about fix this problem . The First, I have used "./configure" command and result is follow. -------------------------------------------------------------------------------------------- arc@arc-System-Product-Name:~/Documents/mcsim-5.5.0$ ./configure checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for style of include used by make... GNU checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking dependency style of gcc... gcc3 checking for ar... ar checking the archiver (ar) interface... ar checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... yes checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for mt... mt checking if mt is a manifest tool... no checking how to run the C preprocessor... gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for gcc... (cached) gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking dependency style of gcc... (cached) gcc3 checking for wish... no checking for gnuplot... no checking for info... yes checking for install-info... yes checking for makeinfo... no checking for main in -lgslcblas... yes checking for main in -lgsl... yes checking for main in -lm... yes checking for main in -lsbml... no checking for ANSI C header files... (cached) yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for an ANSI C-conforming const... yes checking whether struct tm is in sys/time.h or time.h... time.h checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for floor... yes checking for modf... yes checking for pow... yes checking for sqrt... yes checking for strchr... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating mod/Makefile config.status: creating sim/Makefile config.status: creating sim/makemcsim config.status: creating sim/makemcsimd config.status: creating sim/makemcsims config.status: creating samples/perc/Makefile config.status: creating doc/Makefile config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands Second, I have used "make" command and result is follow. So, when this step I found the Error. ------------------------------------------------------------------------------------- arc@arc-System-Product-Name:~/Documents/mcsim-5.5.0$ make make all-recursive make[1]: Entering directory `/home/arc/Documents/mcsim-5.5.0' Making all in mod make[2]: Entering directory `/home/arc/Documents/mcsim-5.5.0/mod' gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT getopt.o -MD -MP -MF .deps/getopt.Tpo -c -o getopt.o getopt.c mv -f .deps/getopt.Tpo .deps/getopt.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lex.o -MD -MP -MF .deps/lex.Tpo -c -o lex.o lex.c mv -f .deps/lex.Tpo .deps/lex.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexerr.o -MD -MP -MF .deps/lexerr.Tpo -c -o lexerr.o lexerr.c mv -f .deps/lexerr.Tpo .deps/lexerr.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexfn.o -MD -MP -MF .deps/lexfn.Tpo -c -o lexfn.o lexfn.c mv -f .deps/lexfn.Tpo .deps/lexfn.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT mod.o -MD -MP -MF .deps/mod.Tpo -c -o mod.o mod.c mod.c: In function 'PromptFilenames': mod.c:108:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] mod.c:117:11: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] mv -f .deps/mod.Tpo .deps/mod.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT modd.o -MD -MP -MF .deps/modd.Tpo -c -o modd.o modd.c mv -f .deps/modd.Tpo .deps/modd.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT modi.o -MD -MP -MF .deps/modi.Tpo -c -o modi.o modi.c mv -f .deps/modi.Tpo .deps/modi.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT modiSBML.o -MD -MP -MF .deps/modiSBML.Tpo -c -o modiSBML.o modiSBML.c modiSBML.c: In function 'CountLines': modiSBML.c:276:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] modiSBML.c:282:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mv -f .deps/modiSBML.Tpo .deps/modiSBML.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT modiSBML2.o -MD -MP -MF .deps/modiSBML2.Tpo -c -o modiSBML2.o modiSBML2.c mv -f .deps/modiSBML2.Tpo .deps/modiSBML2.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT modo.o -MD -MP -MF .deps/modo.Tpo -c -o modo.o modo.c mv -f .deps/modo.Tpo .deps/modo.Po gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT strutil.o -MD -MP -MF .deps/strutil.Tpo -c -o strutil.o strutil.c mv -f .deps/strutil.Tpo .deps/strutil.Po /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -o mod getopt.o lex.o lexerr.o lexfn.o mod.o modd.o modi.o modiSBML.o modiSBML2.o modo.o strutil.o -lm -lgsl -lgslcblas libtool: link: gcc -g -O2 -o mod getopt.o lex.o lexerr.o lexfn.o mod.o modd.o modi.o modiSBML.o modiSBML2.o modo.o strutil.o -lm -lgsl -lgslcblas make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/mod' Making all in sim make[2]: Entering directory `/home/arc/Documents/mcsim-5.5.0/sim' /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -ffloat-store -g -O2 -MT libmodelu_la-modelu.lo -MD -MP -MF .deps/libmodelu_la-modelu.Tpo -c -o libmodelu_la-modelu.lo `test -f 'modelu.c' || echo './'`modelu.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -ffloat-store -g -O2 -MT libmodelu_la-modelu.lo -MD -MP -MF .deps/libmodelu_la-modelu.Tpo -c modelu.c -fPIC -DPIC -o .libs/libmodelu_la-modelu.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -ffloat-store -g -O2 -MT libmodelu_la-modelu.lo -MD -MP -MF .deps/libmodelu_la-modelu.Tpo -c modelu.c -o libmodelu_la-modelu.o >/dev/null 2>&1 mv -f .deps/libmodelu_la-modelu.Tpo .deps/libmodelu_la-modelu.Plo /bin/bash ../libtool --tag=CC --mode=link gcc -ffloat-store -g -O2 -o libmodelu.la -rpath /usr/local/lib libmodelu_la-modelu.lo -lm -lgsl -lgslcblas libtool: link: gcc -shared -fPIC -DPIC .libs/libmodelu_la-modelu.o -lm -lgsl -lgslcblas -O2 -Wl,-soname -Wl,libmodelu.so.0 -o .libs/libmodelu.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libmodelu.so.0" && ln -s "libmodelu.so.0.0.0" "libmodelu.so.0") libtool: link: (cd ".libs" && rm -f "libmodelu.so" && ln -s "libmodelu.so.0.0.0" "libmodelu.so") libtool: link: ar cru .libs/libmodelu.a libmodelu_la-modelu.o libtool: link: ranlib .libs/libmodelu.a libtool: link: ( cd ".libs" && rm -f "libmodelu.la" && ln -s "../ libmodelu.la" "libmodelu.la" ) /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c -o getopt.lo getopt.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c -fPIC -DPIC -o .libs/getopt.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c -o getopt.o >/dev/null 2>&1 mv -f .deps/getopt.Tpo .deps/getopt.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lex.lo -MD -MP -MF .deps/lex.Tpo -c -o lex.lo lex.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lex.lo -MD -MP -MF .deps/lex.Tpo -c lex.c -fPIC -DPIC -o .libs/lex.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lex.lo -MD -MP -MF .deps/lex.Tpo -c lex.c -o lex.o >/dev/null 2>&1 mv -f .deps/lex.Tpo .deps/lex.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexerr.lo -MD -MP -MF .deps/lexerr.Tpo -c -o lexerr.lo lexerr.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexerr.lo -MD -MP -MF .deps/lexerr.Tpo -c lexerr.c -fPIC -DPIC -o .libs/lexerr.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexerr.lo -MD -MP -MF .deps/lexerr.Tpo -c lexerr.c -o lexerr.o >/dev/null 2>&1 mv -f .deps/lexerr.Tpo .deps/lexerr.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexfn.lo -MD -MP -MF .deps/lexfn.Tpo -c -o lexfn.lo lexfn.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexfn.lo -MD -MP -MF .deps/lexfn.Tpo -c lexfn.c -fPIC -DPIC -o .libs/lexfn.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexfn.lo -MD -MP -MF .deps/lexfn.Tpo -c lexfn.c -o lexfn.o >/dev/null 2>&1 mv -f .deps/lexfn.Tpo .deps/lexfn.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT list.lo -MD -MP -MF .deps/list.Tpo -c -o list.lo list.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT list.lo -MD -MP -MF .deps/list.Tpo -c list.c -fPIC -DPIC -o .libs/list.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT list.lo -MD -MP -MF .deps/list.Tpo -c list.c -o list.o >/dev/null 2>&1 mv -f .deps/list.Tpo .deps/list.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lsodes1.lo -MD -MP -MF .deps/lsodes1.Tpo -c -o lsodes1.lo lsodes1.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lsodes1.lo -MD -MP -MF .deps/lsodes1.Tpo -c lsodes1.c -fPIC -DPIC -o .libs/lsodes1.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lsodes1.lo -MD -MP -MF .deps/lsodes1.Tpo -c lsodes1.c -o lsodes1.o >/dev/null 2>&1 mv -f .deps/lsodes1.Tpo .deps/lsodes1.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lsodes2.lo -MD -MP -MF .deps/lsodes2.Tpo -c -o lsodes2.lo lsodes2.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lsodes2.lo -MD -MP -MF .deps/lsodes2.Tpo -c lsodes2.c -fPIC -DPIC -o .libs/lsodes2.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lsodes2.lo -MD -MP -MF .deps/lsodes2.Tpo -c lsodes2.c -o lsodes2.o >/dev/null 2>&1 mv -f .deps/lsodes2.Tpo .deps/lsodes2.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT matutil.lo -MD -MP -MF .deps/matutil.Tpo -c -o matutil.lo matutil.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT matutil.lo -MD -MP -MF .deps/matutil.Tpo -c matutil.c -fPIC -DPIC -o .libs/matutil.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT matutil.lo -MD -MP -MF .deps/matutil.Tpo -c matutil.c -o matutil.o >/dev/null 2>&1 mv -f .deps/matutil.Tpo .deps/matutil.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT matutilo.lo -MD -MP -MF .deps/matutilo.Tpo -c -o matutilo.lo matutilo.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT matutilo.lo -MD -MP -MF .deps/matutilo.Tpo -c matutilo.c -fPIC -DPIC -o .libs/matutilo.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT matutilo.lo -MD -MP -MF .deps/matutilo.Tpo -c matutilo.c -o matutilo.o >/dev/null 2>&1 mv -f .deps/matutilo.Tpo .deps/matutilo.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT mh.lo -MD -MP -MF .deps/mh.Tpo -c -o mh.lo mh.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT mh.lo -MD -MP -MF .deps/mh.Tpo -c mh.c -fPIC -DPIC -o .libs/mh.o mh.c: In function 'ReadRestart2': mh.c:1788:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mh.c:1821:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mh.c: In function 'ReadRestart': mh.c:1721:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mh.c:1743:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] mh.c: In function 'DoMarkov': mh.c:534:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT mh.lo -MD -MP -MF .deps/mh.Tpo -c mh.c -o mh.o >/dev/null 2>&1 mv -f .deps/mh.Tpo .deps/mh.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT optdsign.lo -MD -MP -MF .deps/optdsign.Tpo -c -o optdsign.lo optdsign.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT optdsign.lo -MD -MP -MF .deps/optdsign.Tpo -c optdsign.c -fPIC -DPIC -o .libs/optdsign.o optdsign.c: In function 'ReadAndSimulate': optdsign.c:384:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] optdsign.c:395:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] optdsign.c:401:12: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT optdsign.lo -MD -MP -MF .deps/optdsign.Tpo -c optdsign.c -o optdsign.o >/dev/null 2>&1 mv -f .deps/optdsign.Tpo .deps/optdsign.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT random.lo -MD -MP -MF .deps/random.Tpo -c -o random.lo random.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT random.lo -MD -MP -MF .deps/random.Tpo -c random.c -fPIC -DPIC -o .libs/random.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT random.lo -MD -MP -MF .deps/random.Tpo -c random.c -o random.o >/dev/null 2>&1 mv -f .deps/random.Tpo .deps/random.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT sim.lo -MD -MP -MF .deps/sim.Tpo -c -o sim.lo sim.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT sim.lo -MD -MP -MF .deps/sim.Tpo -c sim.c -fPIC -DPIC -o .libs/sim.o sim.c: In function 'PromptFilenames': sim.c:648:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] sim.c:660:11: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT sim.lo -MD -MP -MF .deps/sim.Tpo -c sim.c -o sim.o >/dev/null 2>&1 mv -f .deps/sim.Tpo .deps/sim.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simi.lo -MD -MP -MF .deps/simi.Tpo -c -o simi.lo simi.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simi.lo -MD -MP -MF .deps/simi.Tpo -c simi.c -fPIC -DPIC -o .libs/simi.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simi.lo -MD -MP -MF .deps/simi.Tpo -c simi.c -o simi.o >/dev/null 2>&1 mv -f .deps/simi.Tpo .deps/simi.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT siminit.lo -MD -MP -MF .deps/siminit.Tpo -c -o siminit.lo siminit.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT siminit.lo -MD -MP -MF .deps/siminit.Tpo -c siminit.c -fPIC -DPIC -o .libs/siminit.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT siminit.lo -MD -MP -MF .deps/siminit.Tpo -c siminit.c -o siminit.o >/dev/null 2>&1 mv -f .deps/siminit.Tpo .deps/siminit.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simmonte.lo -MD -MP -MF .deps/simmonte.Tpo -c -o simmonte.lo simmonte.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simmonte.lo -MD -MP -MF .deps/simmonte.Tpo -c simmonte.c -fPIC -DPIC -o .libs/simmonte.o simmonte.c: In function 'ReadSetPoints': simmonte.c:302:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] simmonte.c:329:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] simmonte.c: In function 'InitSetPoints': simmonte.c:275:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result] libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simmonte.lo -MD -MP -MF .deps/simmonte.Tpo -c simmonte.c -o simmonte.o >/dev/null 2>&1 mv -f .deps/simmonte.Tpo .deps/simmonte.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simo.lo -MD -MP -MF .deps/simo.Tpo -c -o simo.lo simo.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simo.lo -MD -MP -MF .deps/simo.Tpo -c simo.c -fPIC -DPIC -o .libs/simo.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simo.lo -MD -MP -MF .deps/simo.Tpo -c simo.c -o simo.o >/dev/null 2>&1 mv -f .deps/simo.Tpo .deps/simo.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT strutil.lo -MD -MP -MF .deps/strutil.Tpo -c -o strutil.lo strutil.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT strutil.lo -MD -MP -MF .deps/strutil.Tpo -c strutil.c -fPIC -DPIC -o .libs/strutil.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT strutil.lo -MD -MP -MF .deps/strutil.Tpo -c strutil.c -o strutil.o >/dev/null 2>&1 mv -f .deps/strutil.Tpo .deps/strutil.Plo /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT yourcode.lo -MD -MP -MF .deps/yourcode.Tpo -c -o yourcode.lo yourcode.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT yourcode.lo -MD -MP -MF .deps/yourcode.Tpo -c yourcode.c -fPIC -DPIC -o .libs/yourcode.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT yourcode.lo -MD -MP -MF .deps/yourcode.Tpo -c yourcode.c -o yourcode.o >/dev/null 2>&1 mv -f .deps/yourcode.Tpo .deps/yourcode.Plo /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -o libmcsim.la-rpath /usr/local/lib getopt.lo lex.lo lexerr.lo lexfn.lo list.lo lsodes1.lo lsodes2.lo matutil.lo matutilo.lo mh.lo optdsign.lo random.lo sim.lo simi.lo siminit.lo simmonte.lo simo.lo strutil.lo yourcode.lo libmodelu.la -lm -lgsl -lgslcblas libtool: link: gcc -shared -fPIC -DPIC .libs/getopt.o .libs/lex.o .libs/lexerr.o .libs/lexfn.o .libs/list.o .libs/lsodes1.o .libs/lsodes2.o .libs/matutil.o .libs/matutilo.o .libs/mh.o .libs/optdsign.o .libs/random.o .libs/sim.o .libs/simi.o .libs/siminit.o .libs/simmonte.o .libs/simo.o .libs/strutil.o .libs/yourcode.o -Wl,-rpath -Wl,/home/arc/Documents/mcsim-5.5.0/sim/.libs ./.libs/libmodelu.so -lm -lgsl -lgslcblas -O2 -Wl,-soname -Wl,libmcsim.so.0 -o .libs/libmcsim.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libmcsim.so.0" && ln -s "libmcsim.so.0.0.0" "libmcsim.so.0") libtool: link: (cd ".libs" && rm -f "libmcsim.so" && ln -s "libmcsim.so.0.0.0" "libmcsim.so") libtool: link: ar cru .libs/libmcsim.a getopt.o lex.o lexerr.o lexfn.o list.o lsodes1.o lsodes2.o matutil.o matutilo.o mh.o optdsign.o random.o sim.o simi.o siminit.o simmonte.o simo.o strutil.o yourcode.o libtool: link: ranlib .libs/libmcsim.a libtool: link: ( cd ".libs" && rm -f "libmcsim.la" && ln -s "../libmcsim.la" "libmcsim.la" ) make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/sim' Making all in doc make[2]: Entering directory `/home/arc/Documents/mcsim-5.5.0/doc' TEXINPUTS=".:$TEXINPUTS" \ MAKEINFO='/bin/bash /home/arc/Documents/mcsim-5.5.0/missing makeinfo -I .' \ texi2dvi --build-dir=mcsim.t2d -o mcsim.dvi \ mcsim.texinfo /bin/bash: texi2dvi: command not found make[2]: *** [mcsim.dvi] Error 127 make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/doc' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0' make: *** [all] Error 2 Third, I have uesd "make check" command and result is follow. So, I got error again. --------------------------------------------------------------------------------------------------- arc@arc-System-Product-Name:~/Documents/mcsim-5.5.0$ make check Making check in mod make[1]: Entering directory `/home/arc/Documents/mcsim-5.5.0/mod' make[1]: Nothing to be done for `check'. make[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/mod' Making check in sim make[1]: Entering directory `/home/arc/Documents/mcsim-5.5.0/sim' make[1]: Nothing to be done for `check'. make[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/sim' Making check in doc make[1]: Entering directory `/home/arc/Documents/mcsim-5.5.0/doc' TEXINPUTS=".:$TEXINPUTS" \ MAKEINFO='/bin/bash /home/arc/Documents/mcsim-5.5.0/missing makeinfo -I .' \ texi2dvi --build-dir=mcsim.t2d -o mcsim.dvi \ mcsim.texinfo /bin/bash: texi2dvi: command not found make[1]: *** [mcsim.dvi] Error 127 make[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/doc' make: *** [check-recursive] Error 1 Then I have used "make install" command I got error. ---------------------------------------------------------------------------------------------------- arc@arc-System-Product-Name:~/Documents/mcsim-5.5.0$ sudo su [sudo] password for arc: root@arc-System-Product-Name:/home/arc/Documents/mcsim-5.5.0# make install Making install in mod make[1]: Entering directory `/home/arc/Documents/mcsim-5.5.0/mod' make[2]: Entering directory `/home/arc/Documents/mcsim-5.5.0/mod' /bin/mkdir -p '/usr/local/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c mod '/usr/local/bin' libtool: install: /usr/bin/install -c mod /usr/local/bin/mod /bin/mkdir -p '/usr/local/share/mcsim/mod' /usr/bin/install -c -m 644 getopt.c getopt.h hungtype.h lex.c lex.h lexerr.c lexerr.h lexfn.c lexfn.h mod.c mod.h modd.c modd.h modi.c modi.h modiface.h modiSBML.c modiSBML2.c modiSBML.h modo.c modo.h strutil.c strutil.h '/usr/local/share/mcsim/mod' make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/mod' make[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/mod' Making install in sim make[1]: Entering directory `/home/arc/Documents/mcsim-5.5.0/sim' make[2]: Entering directory `/home/arc/Documents/mcsim-5.5.0/sim' /bin/mkdir -p '/usr/local/bin' /usr/bin/install -c makemcsim makemcsims makemcsimd '/usr/local/bin' /bin/mkdir -p '/usr/local/lib' /bin/bash ../libtool --mode=install /usr/bin/install -c libmodelu.la libmcsim.la '/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libmodelu.so.0.0.0 /usr/local/lib/libmodelu.so.0.0.0 libtool: install: (cd /usr/local/lib && { ln -s -f libmodelu.so.0.0.0 libmodelu.so.0 || { rm -f libmodelu.so.0 && ln -s libmodelu.so.0.0.0 libmodelu.so.0; }; }) libtool: install: (cd /usr/local/lib && { ln -s -f libmodelu.so.0.0.0 libmodelu.so || { rm -f libmodelu.so && ln -s libmodelu.so.0.0.0 libmodelu.so; }; }) libtool: install: /usr/bin/install -c .libs/libmodelu.lai /usr/local/lib/ libmodelu.la libtool: install: warning: relinking `libmcsim.la' libtool: install: (cd /home/arc/Documents/mcsim-5.5.0/sim; /bin/bash /home/arc/Documents/mcsim-5.5.0/libtool --tag CC --mode=relink gcc -g -O2 -o libmcsim.la -rpath /usr/local/lib getopt.lo lex.lo lexerr.lo lexfn.lo list.lo lsodes1.lo lsodes2.lo matutil.lo matutilo.lo mh.lo optdsign.lo random.lo sim.lo simi.lo siminit.lo simmonte.lo simo.lo strutil.lo yourcode.lo libmodelu.la -lm -lgsl -lgslcblas ) libtool: relink: gcc -shared -fPIC -DPIC .libs/getopt.o .libs/lex.o .libs/lexerr.o .libs/lexfn.o .libs/list.o .libs/lsodes1.o .libs/lsodes2.o .libs/matutil.o .libs/matutilo.o .libs/mh.o .libs/optdsign.o .libs/random.o .libs/sim.o .libs/simi.o .libs/siminit.o .libs/simmonte.o .libs/simo.o .libs/strutil.o .libs/yourcode.o -L/usr/local/lib -lmodelu -lm -lgsl -lgslcblas -O2 -Wl,-soname -Wl,libmcsim.so.0 -o .libs/libmcsim.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libmcsim.so.0.0.0T /usr/local/lib/libmcsim.so.0.0.0 libtool: install: (cd /usr/local/lib && { ln -s -f libmcsim.so.0.0.0 libmcsim.so.0 || { rm -f libmcsim.so.0 && ln -s libmcsim.so.0.0.0 libmcsim.so.0; }; }) libtool: install: (cd /usr/local/lib && { ln -s -f libmcsim.so.0.0.0 libmcsim.so || { rm -f libmcsim.so && ln -s libmcsim.so.0.0.0 libmcsim.so; }; }) libtool: install: /usr/bin/install -c .libs/libmcsim.lai /usr/local/lib/ libmcsim.la libtool: install: /usr/bin/install -c .libs/libmodelu.a /usr/local/lib/libmodelu.a libtool: install: chmod 644 /usr/local/lib/libmodelu.a libtool: install: ranlib /usr/local/lib/libmodelu.a libtool: install: /usr/bin/install -c .libs/libmcsim.a /usr/local/lib/libmcsim.a libtool: install: chmod 644 /usr/local/lib/libmcsim.a libtool: install: ranlib /usr/local/lib/libmcsim.a libtool: finish: PATH="/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/sbin" ldconfig -n /usr/local/lib ---------------------------------------------------------------------- Libraries have been installed in: /usr/local/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- /bin/mkdir -p '/usr/local/include' /usr/bin/install -c -m 644 matutil.h list.h lex.h sim.h lexfn.h hungtype.h modiface.h modelu.h random.h yourcode.h '/usr/local/include' /bin/mkdir -p '/usr/local/share/mcsim/sim' /usr/bin/install -c -m 644 getopt.c getopt.h hungtype.h lex.c lex.h lexerr.c lexerr.h lexfn.c lexfn.h list.c list.h lsodes.h lsodes1.c lsodes2.c matutil.c matutil.h matutilo.c matutilo.h mh.c mh.h modiface.h optdsign.c optdsign.h random.c random.h sim.c sim.h simi.c simi.h siminit.c siminit.h simmonte.c simmonte.h simo.c simo.h strutil.c strutil.h yourcode.c yourcode.h modelu.c '/usr/local/share/mcsim/sim' /usr/bin/install -c -m 644 modelu.h '/usr/local/share/mcsim/sim' make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/sim' make[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/sim' Making install in doc make[1]: Entering directory `/home/arc/Documents/mcsim-5.5.0/doc' TEXINPUTS=".:$TEXINPUTS" \ MAKEINFO='/bin/bash /home/arc/Documents/mcsim-5.5.0/missing makeinfo -I .' \ texi2dvi --build-dir=mcsim.t2d -o mcsim.dvi \ mcsim.texinfo /bin/bash: texi2dvi: command not found make[1]: *** [mcsim.dvi] Error 127 make[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/doc' make: *** [install-recursive] Error 1 After that I go to the "usr/local/bin" directory I didn't find "xmcsim" in that path. and the "usr/local/share" directory I didn't find "xmcsim" too. then, I go to the "mcsim/samples/perc" directory I started to type "mod perc.model" I got follow this. ---------------------------------------------------------------------------------------------------- root@arc-System-Product-Name:/home/arc/Documents/mcsim-5.5.0/samples/perc# mod perc.model ________________________________________ Mod v5.5.0 - Model Generator for MCSim MCSim and associated software comes with ABSOLUTELY NO WARRANTY; This is free software, and you are welcome to redistribute it under certain conditions; see the GNU General Public License. * Created C model file 'model.c'. After that, I have used "makemcsim perc.model" but mcsim.perc wasn't created. and I got follow this. -------------------------------------------------------------------------------------------------- root@arc-System-Product-Name:/home/arc/Documents/mcsim-5.5.0/samples/perc# makemcsim perc.model Creating model.c file from perc.model ... ________________________________________ Mod v5.5.0 - Model Generator for MCSim MCSim and associated software comes with ABSOLUTELY NO WARRANTY; This is free software, and you are welcome to redistribute it under certain conditions; see the GNU General Public License. * Created C model file 'model.c'. Compiling model ... model.c:75:15: fatal error: R.h: No such file or directory compilation terminated. root@arc-System-Product-Name:/home/arc/Documents/mcsim-5.5.0/samples/perc# Cloud you help me please ? Thank you so much. Arnon --001a11c2e458523c5004f2f7785d Content-Type: text/html; charset=ISO-8859-1 Content-Transfer-Encoding: quoted-printable <div class=3D"gmail_quote">---------- Forwarded message ----------<br>From:= "Arnon Chitsakhon" <<a href=3D"mailto:[email protected]">ar= [email protected]</a>><br>Date: Feb 22, 2014 11:23 AM<br>Subject: Bug in= stalled and compiled Report GNU MCSim (5.5.0)<br> To: <<a href=3D"mailto:[email protected]">[email protected]</a>><br>= Cc: "Manupat Lohitnavy" <<a href=3D"mailto:[email protected]"= >[email protected]</a>>, "Brad Reisfeld" <<a href=3D"mailt= o:[email protected]">[email protected]</a>>, "Kitza Kri= tsada" <<a href=3D"mailto:[email protected]">[email protected]= m</a>><br> <br type=3D"attribution"><div dir=3D"ltr"><div><div><div>Dear Sir,<br><br>M= y name is Arnon. I'm a student from Naresuan University in Thailand. I&= #39;m doing my work about PKPB modeling. I'm interested in your GNU MCS= im program for my work. <br> <br>I have attempted to install GNU MCSim (5.5.0) on Ubuntu version 12.10 b= ut I found a few bugs when I installed and compiled. <br><br></div>I have u= sed the command prompt follow this email install package. <br>($ represents= the Ubuntu command prompt.)<br> </div><div><br></div><div>I must to very apologize you for the very long E-= mail to you first.<br></div><div>I hope that you help me about fix this pro= blem .<br><br></div><div><br></div>The First, I have used "./con= figure" command and result is follow.<br> <br>-----------------------------------------------------------------------= ---------------------<br>arc@arc-System-Product-Name:~/Documents/mcsim-5.5.= 0$ ./configure<br>checking for a BSD-compatible install... /usr/bin/install= -c<br> checking whether build environment is sane... yes<br>checking for a thread-= safe mkdir -p... /bin/mkdir -p<br>checking for gawk... no<br>checking for m= awk... mawk<br>checking whether make sets $(MAKE)... yes<br>checking whethe= r make supports nested variables... yes<br> checking for style of include used by make... GNU<br>checking for gcc... gc= c<br>checking whether the C compiler works... yes<br>checking for C compile= r default output file name... a.out<br>checking for suffix of executables..= . <br> checking whether we are cross compiling... no<br>checking for suffix of obj= ect files... o<br>checking whether we are using the GNU C compiler... yes<b= r>checking whether gcc accepts -g... yes<br>checking for gcc option to acce= pt ISO C89... none needed<br> checking dependency style of gcc... gcc3<br>checking for ar... ar<br>checki= ng the archiver (ar) interface... ar<br>checking build system type... x86_6= 4-unknown-linux-gnu<br>checking host system type... x86_64-unknown-linux-gn= u<br> checking how to print strings... printf<br>checking for a sed that does not= truncate output... /bin/sed<br>checking for grep that handles long lines a= nd -e... /bin/grep<br>checking for egrep... /bin/grep -E<br>checking for fg= rep... /bin/grep -F<br> checking for ld used by gcc... /usr/bin/ld<br>checking if the linker (/usr/= bin/ld) is GNU ld... yes<br>checking for BSD- or MS-compatible name lister = (nm)... /usr/bin/nm -B<br>checking the name lister (/usr/bin/nm -B) interfa= ce... BSD nm<br> checking whether ln -s works... yes<br>checking the maximum length of comma= nd line arguments... 1572864<br>checking whether the shell understands some= XSI constructs... yes<br>checking whether the shell understands "+=3D= "... yes<br> checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unkno= wn-linux-gnu format... func_convert_file_noop<br>checking how to convert x8= 6_64-unknown-linux-gnu file names to toolchain format... func_convert_file_= noop<br> checking for /usr/bin/ld option to reload object files... -r<br>checking fo= r objdump... objdump<br>checking how to recognize dependent libraries... pa= ss_all<br>checking for dlltool... no<br>checking how to associate runtime a= nd link libraries... printf %s\n<br> checking for archiver @FILE support... @<br>checking for strip... strip<br>= checking for ranlib... ranlib<br>checking command to parse /usr/bin/nm -B o= utput from gcc object... ok<br>checking for sysroot... no<br>checking for m= t... mt<br> checking if mt is a manifest tool... no<br>checking how to run the C prepro= cessor... gcc -E<br>checking for ANSI C header files... yes<br>checking for= sys/types.h... yes<br>checking for sys/stat.h... yes<br>checking for stdli= b.h... yes<br> checking for string.h... yes<br>checking for memory.h... yes<br>checking fo= r strings.h... yes<br>checking for inttypes.h... yes<br>checking for stdint= .h... yes<br>checking for unistd.h... yes<br>checking for dlfcn.h... yes<br= > checking for objdir... .libs<br>checking if gcc supports -fno-rtti -fno-exc= eptions... no<br>checking for gcc option to produce PIC... -fPIC -DPIC<br>c= hecking if gcc PIC flag -fPIC -DPIC works... yes<br>checking if gcc static = flag -static works... yes<br> checking if gcc supports -c -o file.o... yes<br>checking if gcc supports -c= -o file.o... (cached) yes<br>checking whether the gcc linker (/usr/bin/ld = -m elf_x86_64) supports shared libraries... yes<br>checking whether -lc sho= uld be explicitly linked in... no<br> checking dynamic linker characteristics... GNU/Linux ld.so<br>checking how = to hardcode library paths into programs... immediate<br>checking whether st= ripping libraries is possible... yes<br>checking if libtool supports shared= libraries... yes<br> checking whether to build shared libraries... yes<br>checking whether to bu= ild static libraries... yes<br>checking for gcc... (cached) gcc<br>checking= whether we are using the GNU C compiler... (cached) yes<br>checking whethe= r gcc accepts -g... (cached) yes<br> checking for gcc option to accept ISO C89... (cached) none needed<br>checki= ng dependency style of gcc... (cached) gcc3<br>checking for wish... no<br>c= hecking for gnuplot... no<br>checking for info... yes<br>checking for insta= ll-info... yes<br> checking for makeinfo... no<br>checking for main in -lgslcblas... yes<br>ch= ecking for main in -lgsl... yes<br>checking for main in -lm... yes<br>check= ing for main in -lsbml... no<br>checking for ANSI C header files... (cached= ) yes<br> checking float.h usability... yes<br>checking float.h presence... yes<br>ch= ecking for float.h... yes<br>checking limits.h usability... yes<br>checking= limits.h presence... yes<br>checking for limits.h... yes<br>checking for a= n ANSI C-conforming const... yes<br> checking whether struct tm is in sys/time.h or time.h... time.h<br>checking= for stdlib.h... (cached) yes<br>checking for GNU libc compatible malloc...= yes<br>checking for stdlib.h... (cached) yes<br>checking for GNU libc comp= atible realloc... yes<br> checking for floor... yes<br>checking for modf... yes<br>checking for pow..= . yes<br>checking for sqrt... yes<br>checking for strchr... yes<br>checking= that generated files are newer than configure... done<br>configure: creati= ng ./config.status<br> config.status: creating Makefile<br>config.status: creating mod/Makefile<br= >config.status: creating sim/Makefile<br>config.status: creating sim/makemc= sim<br>config.status: creating sim/makemcsimd<br>config.status: creating si= m/makemcsims<br> config.status: creating samples/perc/Makefile<br>config.status: creating do= c/Makefile<br>config.status: creating config.h<br>config.status: executing = depfiles commands<br>config.status: executing libtool commands<br><br> <br> <br><br><br>Second, I have used "make" command and result is foll= ow.<br>So, when this step I found the Error. <br><br>----------------------= ---------------------------------------------------------------<br>arc@arc-= System-Product-Name:~/Documents/mcsim-5.5.0$ make<br> make all-recursive<br>make[1]: Entering directory `/home/arc/Document= s/mcsim-5.5.0'<br>Making all in mod<br>make[2]: Entering directory `/ho= me/arc/Documents/mcsim-5.5.0/mod'<br>gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT getopt.o -MD -MP -MF .deps/getopt.Tpo -c -o g= etopt.o getopt.c<br> mv -f .deps/getopt.Tpo .deps/getopt.Po<br>gcc -DHAVE_CONFIG_H -I. -I.. = ; -g -O2 -MT lex.o -MD -MP -MF .deps/lex.Tpo -c -o lex.o = lex.c<br>mv -f .deps/lex.Tpo .deps/lex.Po<br>gcc -DHAVE_CONFIG_H -I. -I..&n= bsp; -g -O2 -MT lexerr.o -MD -MP -MF .deps/lexerr.Tpo -c = -o lexerr.o lexerr.c<br> mv -f .deps/lexerr.Tpo .deps/lexerr.Po<br>gcc -DHAVE_CONFIG_H -I. -I.. = ; -g -O2 -MT lexfn.o -MD -MP -MF .deps/lexfn.Tpo -c -o le= xfn.o lexfn.c<br>mv -f .deps/lexfn.Tpo .deps/lexfn.Po<br>gcc -DHAVE_CONFIG_= H -I. -I.. -g -O2 -MT mod.o -MD -MP -MF .deps/mod.T= po -c -o mod.o mod.c<br> mod.c: In function ‘PromptFilenames’:<br>mod.c:108:9: warning: = ignoring return value of ‘fgets’, declared with attribute warn_= unused_result [-Wunused-result]<br>mod.c:117:11: warning: ignoring return v= alue of ‘fgets’, declared with attribute warn_unused_result [-W= unused-result]<br> mv -f .deps/mod.Tpo .deps/mod.Po<br>gcc -DHAVE_CONFIG_H -I. -I..  = ; -g -O2 -MT modd.o -MD -MP -MF .deps/modd.Tpo -c -o modd.o mod= d.c<br>mv -f .deps/modd.Tpo .deps/modd.Po<br>gcc -DHAVE_CONFIG_H -I. -I..&n= bsp; -g -O2 -MT modi.o -MD -MP -MF .deps/modi.Tpo -c -o m= odi.o modi.c<br> mv -f .deps/modi.Tpo .deps/modi.Po<br>gcc -DHAVE_CONFIG_H -I. -I.. &nb= sp; -g -O2 -MT modiSBML.o -MD -MP -MF .deps/modiSBML.Tpo -c -o = modiSBML.o modiSBML.c<br>modiSBML.c: In function ‘CountLines’:<= br>modiSBML.c:276:10: warning: ignoring return value of ‘fscanf&rsquo= ;, declared with attribute warn_unused_result [-Wunused-result]<br> modiSBML.c:282:12: warning: ignoring return value of ‘fscanf’, = declared with attribute warn_unused_result [-Wunused-result]<br>mv -f .deps= /modiSBML.Tpo .deps/modiSBML.Po<br>gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT modiSBML2.o -MD -MP -MF .deps/modiSBML2.Tpo -c -o m= odiSBML2.o modiSBML2.c<br> mv -f .deps/modiSBML2.Tpo .deps/modiSBML2.Po<br>gcc -DHAVE_CONFIG_H -I. -I.= . -g -O2 -MT modo.o -MD -MP -MF .deps/modo.Tpo -c -= o modo.o modo.c<br>mv -f .deps/modo.Tpo .deps/modo.Po<br>gcc -DHAVE_CONFIG_= H -I. -I.. -g -O2 -MT strutil.o -MD -MP -MF .deps/s= trutil.Tpo -c -o strutil.o strutil.c<br> mv -f .deps/strutil.Tpo .deps/strutil.Po<br>/bin/bash ../libtool --ta= g=3DCC --mode=3Dlink gcc -g -O2 -o mod getopt= .o lex.o lexerr.o lexfn.o mod.o modd.o modi.o modiSBML.o modiSBML2.o modo.o= strutil.o -lm -lgsl -lgslcblas <br> libtool: link: gcc -g -O2 -o mod getopt.o lex.o lexerr.o lexfn.o mod.o modd= .o modi.o modiSBML.o modiSBML2.o modo.o strutil.o -lm -lgsl -lgslcbla= s<br>make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/mod'<b= r> Making all in sim<br>make[2]: Entering directory `/home/arc/Documents/mcsim= -5.5.0/sim'<br>/bin/bash ../libtool --tag=3DCC --mode= =3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. -ffloat-store -g = -O2 -MT libmodelu_la-modelu.lo -MD -MP -MF .deps/libmodelu_la-modelu.Tpo -c= -o libmodelu_la-modelu.lo `test -f 'modelu.c' || echo './'= `modelu.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -ffloat-store -g -O2 -= MT libmodelu_la-modelu.lo -MD -MP -MF .deps/libmodelu_la-modelu.Tpo -c mode= lu.c -fPIC -DPIC -o .libs/libmodelu_la-modelu.o<br>libtool: compile:&= nbsp; gcc -DHAVE_CONFIG_H -I. -I.. -ffloat-store -g -O2 -MT libmodelu_la-mo= delu.lo -MD -MP -MF .deps/libmodelu_la-modelu.Tpo -c modelu.c -o libmodelu_= la-modelu.o >/dev/null 2>&1<br> mv -f .deps/libmodelu_la-modelu.Tpo .deps/libmodelu_la-modelu.Plo<br>/bin/b= ash ../libtool --tag=3DCC --mode=3Dlink gcc -ffloat-store= -g -O2 -o <a href=3D"http://libmodelu.la" target=3D"_blank">li= bmodelu.la</a> -rpath /usr/local/lib libmodelu_la-modelu.lo -lm -lgsl= -lgslcblas <br> libtool: link: gcc -shared -fPIC -DPIC .libs/libmodelu_la-model= u.o -lm -lgsl -lgslcblas -O2 -Wl,-soname -Wl,= libmodelu.so.0 -o .libs/libmodelu.so.0.0.0<br>libtool: link: (cd ".lib= s" && rm -f "libmodelu.so.0" && ln -s "= libmodelu.so.0.0.0" "libmodelu.so.0")<br> libtool: link: (cd ".libs" && rm -f "libmodelu.so&qu= ot; && ln -s "libmodelu.so.0.0.0" "libmodelu.so"= ;)<br>libtool: link: ar cru .libs/libmodelu.a libmodelu_la-modelu.o<b= r> libtool: link: ranlib .libs/libmodelu.a<br>libtool: link: ( cd ".libs&= quot; && rm -f "<a href=3D"http://libmodelu.la" target=3D"_bla= nk">libmodelu.la</a>" && ln -s "../<a href=3D"http://libm= odelu.la" target=3D"_blank">libmodelu.la</a>" "<a href=3D"http://= libmodelu.la" target=3D"_blank">libmodelu.la</a>" )<br> /bin/bash ../libtool --tag=3DCC --mode=3Dcompile gcc -DHA= VE_CONFIG_H -I. -I.. -g -O2 -MT getopt.lo -MD -MP -= MF .deps/getopt.Tpo -c -o getopt.lo getopt.c<br>libtool: compile: gcc= -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo= -c getopt.c -fPIC -DPIC -o .libs/getopt.o<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT getopt.lo -= MD -MP -MF .deps/getopt.Tpo -c getopt.c -o getopt.o >/dev/null 2>&= ;1<br>mv -f .deps/getopt.Tpo .deps/getopt.Plo<br>/bin/bash ../libtool = --tag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT lex.lo -MD -MP -MF .deps/lex.Tpo -c -o lex.lo= lex.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lex.lo -MD = -MP -MF .deps/lex.Tpo -c lex.c -fPIC -DPIC -o .libs/lex.o<br>libtool:= compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lex.lo -MD -MP -MF = .deps/lex.Tpo -c lex.c -o lex.o >/dev/null 2>&1<br> mv -f .deps/lex.Tpo .deps/lex.Plo<br>/bin/bash ../libtool --tag=3DCC&= nbsp; --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT lexerr.lo -MD -MP -MF .deps/lexerr.Tpo -c -o lexerr.lo le= xerr.c<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT l= exerr.lo -MD -MP -MF .deps/lexerr.Tpo -c lexerr.c -fPIC -DPIC -o .lib= s/lexerr.o<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexerr.lo -= MD -MP -MF .deps/lexerr.Tpo -c lexerr.c -o lexerr.o >/dev/null 2>&= ;1<br>mv -f .deps/lexerr.Tpo .deps/lexerr.Plo<br>/bin/bash ../libtool = --tag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT lexfn.lo -MD -MP -MF .deps/lexfn.Tpo -c -o le= xfn.lo lexfn.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexfn.lo -M= D -MP -MF .deps/lexfn.Tpo -c lexfn.c -fPIC -DPIC -o .libs/lexfn.o<br>= libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lexfn.lo -M= D -MP -MF .deps/lexfn.Tpo -c lexfn.c -o lexfn.o >/dev/null 2>&1<b= r> mv -f .deps/lexfn.Tpo .deps/lexfn.Plo<br>/bin/bash ../libtool --tag= =3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT list.lo -MD -MP -MF .deps/list.Tpo -c -o list.lo li= st.c<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lis= t.lo -MD -MP -MF .deps/list.Tpo -c list.c -fPIC -DPIC -o .libs/list.o= <br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT list.lo -MD= -MP -MF .deps/list.Tpo -c list.c -o list.o >/dev/null 2>&1<br>mv= -f .deps/list.Tpo .deps/list.Plo<br>/bin/bash ../libtool --tag=3DCC&= nbsp; --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT lsodes1.lo -MD -MP -MF .deps/lsodes1.Tpo -c -o lsodes1.lo= lsodes1.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lsodes1.lo = -MD -MP -MF .deps/lsodes1.Tpo -c lsodes1.c -fPIC -DPIC -o .libs/lsode= s1.o<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lso= des1.lo -MD -MP -MF .deps/lsodes1.Tpo -c lsodes1.c -o lsodes1.o >/dev/nu= ll 2>&1<br> mv -f .deps/lsodes1.Tpo .deps/lsodes1.Plo<br>/bin/bash ../libtool --t= ag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. &nbs= p; -g -O2 -MT lsodes2.lo -MD -MP -MF .deps/lsodes2.Tpo -c -o ls= odes2.lo lsodes2.c<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT lsodes2.lo -MD -MP -MF .deps/lsodes2.Tpo -c lsodes2.c -fPI= C -DPIC -o .libs/lsodes2.o<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT lsodes2.lo = -MD -MP -MF .deps/lsodes2.Tpo -c lsodes2.c -o lsodes2.o >/dev/null 2>= &1<br>mv -f .deps/lsodes2.Tpo .deps/lsodes2.Plo<br>/bin/bash ../libtool= --tag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I..= -g -O2 -MT matutil.lo -MD -MP -MF .deps/matutil.Tp= o -c -o matutil.lo matutil.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT matutil.lo = -MD -MP -MF .deps/matutil.Tpo -c matutil.c -fPIC -DPIC -o .libs/matut= il.o<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT mat= util.lo -MD -MP -MF .deps/matutil.Tpo -c matutil.c -o matutil.o >/dev/nu= ll 2>&1<br> mv -f .deps/matutil.Tpo .deps/matutil.Plo<br>/bin/bash ../libtool --t= ag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. &nbs= p; -g -O2 -MT matutilo.lo -MD -MP -MF .deps/matutilo.Tpo -c -o = matutilo.lo matutilo.c<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -= I.. -g -O2 -MT matutilo.lo -MD -MP -MF .deps/matutilo.Tpo -c matutilo.c&nbs= p; -fPIC -DPIC -o .libs/matutilo.o<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT matutilo.lo= -MD -MP -MF .deps/matutilo.Tpo -c matutilo.c -o matutilo.o >/dev/null 2= >&1<br>mv -f .deps/matutilo.Tpo .deps/matutilo.Plo<br>/bin/bash ../l= ibtool --tag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I= . -I.. -g -O2 -MT mh.lo -MD -MP -MF .deps/mh.Tpo -c= -o mh.lo mh.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT mh.lo -MD -= MP -MF .deps/mh.Tpo -c mh.c -fPIC -DPIC -o .libs/mh.o<br>mh.c: In fun= ction 'ReadRestart2':<br>mh.c:1788:10: warning: ignoring return val= ue of 'fscanf', declared with attribute warn_unused_result [-Wunuse= d-result]<br> mh.c:1821:12: warning: ignoring return value of 'fscanf', declared = with attribute warn_unused_result [-Wunused-result]<br>mh.c: In function &#= 39;ReadRestart':<br>mh.c:1721:10: warning: ignoring return value of = 9;fscanf', declared with attribute warn_unused_result [-Wunused-result]= <br> mh.c:1743:12: warning: ignoring return value of 'fscanf', declared = with attribute warn_unused_result [-Wunused-result]<br>mh.c: In function &#= 39;DoMarkov':<br>mh.c:534:12: warning: ignoring return value of 'fs= canf', declared with attribute warn_unused_result [-Wunused-result]<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT mh.lo -MD -= MP -MF .deps/mh.Tpo -c mh.c -o mh.o >/dev/null 2>&1<br>mv -f .dep= s/mh.Tpo .deps/mh.Plo<br>/bin/bash ../libtool --tag=3DCC = --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. -g -O= 2 -MT optdsign.lo -MD -MP -MF .deps/optdsign.Tpo -c -o optdsign.lo optdsign= .c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT optdsign.lo= -MD -MP -MF .deps/optdsign.Tpo -c optdsign.c -fPIC -DPIC -o .libs/op= tdsign.o<br>optdsign.c: In function 'ReadAndSimulate':<br>optdsign.= c:384:10: warning: ignoring return value of 'fscanf', declared with= attribute warn_unused_result [-Wunused-result]<br> optdsign.c:395:14: warning: ignoring return value of 'fscanf', decl= ared with attribute warn_unused_result [-Wunused-result]<br>optdsign.c:401:= 12: warning: ignoring return value of 'fscanf', declared with attri= bute warn_unused_result [-Wunused-result]<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT optdsign.lo= -MD -MP -MF .deps/optdsign.Tpo -c optdsign.c -o optdsign.o >/dev/null 2= >&1<br>mv -f .deps/optdsign.Tpo .deps/optdsign.Plo<br>/bin/bash ../l= ibtool --tag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I= . -I.. -g -O2 -MT random.lo -MD -MP -MF .deps/rando= m.Tpo -c -o random.lo random.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT random.lo -= MD -MP -MF .deps/random.Tpo -c random.c -fPIC -DPIC -o .libs/random.o= <br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT random.= lo -MD -MP -MF .deps/random.Tpo -c random.c -o random.o >/dev/null 2>= &1<br> mv -f .deps/random.Tpo .deps/random.Plo<br>/bin/bash ../libtool --tag= =3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT sim.lo -MD -MP -MF .deps/sim.Tpo -c -o sim.lo sim.c= <br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT sim.lo = -MD -MP -MF .deps/sim.Tpo -c sim.c -fPIC -DPIC -o .libs/sim.o<br> sim.c: In function 'PromptFilenames':<br>sim.c:648:9: warning: igno= ring return value of 'fgets', declared with attribute warn_unused_r= esult [-Wunused-result]<br>sim.c:660:11: warning: ignoring return value of = 'fgets', declared with attribute warn_unused_result [-Wunused-resul= t]<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT sim.lo -MD = -MP -MF .deps/sim.Tpo -c sim.c -o sim.o >/dev/null 2>&1<br>mv -f = .deps/sim.Tpo .deps/sim.Plo<br>/bin/bash ../libtool --tag=3DCC &= nbsp; --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. = -g -O2 -MT simi.lo -MD -MP -MF .deps/simi.Tpo -c -o simi.lo simi.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simi.lo -MD= -MP -MF .deps/simi.Tpo -c simi.c -fPIC -DPIC -o .libs/simi.o<br>libt= ool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simi.lo -MD -MP= -MF .deps/simi.Tpo -c simi.c -o simi.o >/dev/null 2>&1<br> mv -f .deps/simi.Tpo .deps/simi.Plo<br>/bin/bash ../libtool --tag=3DC= C --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. &nbs= p; -g -O2 -MT siminit.lo -MD -MP -MF .deps/siminit.Tpo -c -o siminit.= lo siminit.c<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2= -MT siminit.lo -MD -MP -MF .deps/siminit.Tpo -c siminit.c -fPIC -DPI= C -o .libs/siminit.o<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT siminit.lo = -MD -MP -MF .deps/siminit.Tpo -c siminit.c -o siminit.o >/dev/null 2>= &1<br>mv -f .deps/siminit.Tpo .deps/siminit.Plo<br>/bin/bash ../libtool= --tag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I..= -g -O2 -MT simmonte.lo -MD -MP -MF .deps/simmonte.= Tpo -c -o simmonte.lo simmonte.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simmonte.lo= -MD -MP -MF .deps/simmonte.Tpo -c simmonte.c -fPIC -DPIC -o .libs/si= mmonte.o<br>simmonte.c: In function 'ReadSetPoints':<br>simmonte.c:= 302:9: warning: ignoring return value of 'fscanf', declared with at= tribute warn_unused_result [-Wunused-result]<br> simmonte.c:329:10: warning: ignoring return value of 'fscanf', decl= ared with attribute warn_unused_result [-Wunused-result]<br>simmonte.c: In = function 'InitSetPoints':<br>simmonte.c:275:10: warning: ignoring r= eturn value of 'fscanf', declared with attribute warn_unused_result= [-Wunused-result]<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simmonte.lo= -MD -MP -MF .deps/simmonte.Tpo -c simmonte.c -o simmonte.o >/dev/null 2= >&1<br>mv -f .deps/simmonte.Tpo .deps/simmonte.Plo<br>/bin/bash ../l= ibtool --tag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I= . -I.. -g -O2 -MT simo.lo -MD -MP -MF .deps/simo.Tp= o -c -o simo.lo simo.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simo.lo -MD= -MP -MF .deps/simo.Tpo -c simo.c -fPIC -DPIC -o .libs/simo.o<br>libt= ool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT simo.lo -MD -MP= -MF .deps/simo.Tpo -c simo.c -o simo.o >/dev/null 2>&1<br> mv -f .deps/simo.Tpo .deps/simo.Plo<br>/bin/bash ../libtool --tag=3DC= C --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I.. &nbs= p; -g -O2 -MT strutil.lo -MD -MP -MF .deps/strutil.Tpo -c -o strutil.= lo strutil.c<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2= -MT strutil.lo -MD -MP -MF .deps/strutil.Tpo -c strutil.c -fPIC -DPI= C -o .libs/strutil.o<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT strutil.lo = -MD -MP -MF .deps/strutil.Tpo -c strutil.c -o strutil.o >/dev/null 2>= &1<br>mv -f .deps/strutil.Tpo .deps/strutil.Plo<br>/bin/bash ../libtool= --tag=3DCC --mode=3Dcompile gcc -DHAVE_CONFIG_H -I. -I..= -g -O2 -MT yourcode.lo -MD -MP -MF .deps/yourcode.= Tpo -c -o yourcode.lo yourcode.c<br> libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT yourcode.lo= -MD -MP -MF .deps/yourcode.Tpo -c yourcode.c -fPIC -DPIC -o .libs/yo= urcode.o<br>libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -g -O2 -MT= yourcode.lo -MD -MP -MF .deps/yourcode.Tpo -c yourcode.c -o yourcode.o >= ;/dev/null 2>&1<br> mv -f .deps/yourcode.Tpo .deps/yourcode.Plo<br>/bin/bash ../libtool -= -tag=3DCC --mode=3Dlink gcc -g -O2 -o <a href= =3D"http://libmcsim.la" target=3D"_blank">libmcsim.la</a> -rpath /usr/local= /lib getopt.lo lex.lo lexerr.lo lexfn.lo list.lo lsodes1.lo lsodes2.lo matu= til.lo matutilo.lo mh.lo optdsign.lo random.lo sim.lo simi.lo siminit.lo si= mmonte.lo simo.lo strutil.lo yourcode.lo <a href=3D"http://libmodelu.la" ta= rget=3D"_blank">libmodelu.la</a> -lm -lgsl -lgslcblas <br> libtool: link: gcc -shared -fPIC -DPIC .libs/getopt.o .libs/lex= .o .libs/lexerr.o .libs/lexfn.o .libs/list.o .libs/lsodes1.o .libs/lsodes2.= o .libs/matutil.o .libs/matutilo.o .libs/mh.o .libs/optdsign.o .libs/random= .o .libs/sim.o .libs/simi.o .libs/siminit.o .libs/simmonte.o .libs/simo.o .= libs/strutil.o .libs/yourcode.o -Wl,-rpath -Wl,/home/arc/Docume= nts/mcsim-5.5.0/sim/.libs ./.libs/libmodelu.so -lm -lgsl -lgslcblas -= O2 -Wl,-soname -Wl,libmcsim.so.0 -o .libs/libmcsim.so.0.0.0<br> libtool: link: (cd ".libs" && rm -f "libmcsim.so.0&q= uot; && ln -s "libmcsim.so.0.0.0" "libmcsim.so.0&quo= t;)<br>libtool: link: (cd ".libs" && rm -f "libmcsim= .so" && ln -s "libmcsim.so.0.0.0" "libmcsim.so&= quot;)<br> libtool: link: ar cru .libs/libmcsim.a getopt.o lex.o lexerr.o lexfn.= o list.o lsodes1.o lsodes2.o matutil.o matutilo.o mh.o optdsign.o random.o = sim.o simi.o siminit.o simmonte.o simo.o strutil.o yourcode.o<br>libtool: l= ink: ranlib .libs/libmcsim.a<br> libtool: link: ( cd ".libs" && rm -f "<a href=3D"htt= p://libmcsim.la" target=3D"_blank">libmcsim.la</a>" && ln -s &= quot;../<a href=3D"http://libmcsim.la" target=3D"_blank">libmcsim.la</a>&qu= ot; "<a href=3D"http://libmcsim.la" target=3D"_blank">libmcsim.la</a>&= quot; )<br> make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/sim'<br>Mak= ing all in doc<br>make[2]: Entering directory `/home/arc/Documents/mcsim-5.= 5.0/doc'<br>TEXINPUTS=3D".:$TEXINPUTS" \<br>  = ; MAKEINFO=3D'/bin/bash /home/arc/Documents/mcsim-5.5.0/missing makeinf= o -I .' \<br> texi2dvi --build-dir=3Dmcsim.t2d -o mcsim.dvi = ; \<br> mcsim.texinfo<br>/bin/bash: texi2dvi: command not= found<br>make[2]: *** [mcsim.dvi] Error 127<br>make[2]: Leaving directory = `/home/arc/Documents/mcsim-5.5.0/doc'<br> make[1]: *** [all-recursive] Error 1<br>make[1]: Leaving directory `/home/a= rc/Documents/mcsim-5.5.0'<br>make: *** [all] Error 2<br><br><br><br><br= ><br></div><div>Third, I have uesd "make check" command and resul= t is follow.<br> </div><div>So, I got error again.<br></div><div><br>-----------------------= ---------------------------------------------------------------------------= -<br>arc@arc-System-Product-Name:~/Documents/mcsim-5.5.0$ make check<br> Making check in mod<br>make[1]: Entering directory `/home/arc/Documents/mcs= im-5.5.0/mod'<br>make[1]: Nothing to be done for `check'.<br>make[1= ]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/mod'<br>Making ch= eck in sim<br> make[1]: Entering directory `/home/arc/Documents/mcsim-5.5.0/sim'<br>ma= ke[1]: Nothing to be done for `check'.<br>make[1]: Leaving directory `/= home/arc/Documents/mcsim-5.5.0/sim'<br>Making check in doc<br>make[1]: = Entering directory `/home/arc/Documents/mcsim-5.5.0/doc'<br> TEXINPUTS=3D".:$TEXINPUTS" \<br> MAKEINFO=3D= 9;/bin/bash /home/arc/Documents/mcsim-5.5.0/missing makeinfo -I= .' \<br> texi2dvi --build-dir=3Dmcsim.t2d -o m= csim.dvi \<br> mcsim.texinfo<br>/bin/bash: texi2dvi= : command not found<br> make[1]: *** [mcsim.dvi] Error 127<br>make[1]: Leaving directory `/home/arc= /Documents/mcsim-5.5.0/doc'<br>make: *** [check-recursive] Error 1<br><= br></div><div><br><br><br><br></div><div>Then I have used "make instal= l" command I got error.<br> </div><div><br>------------------------------------------------------------= ----------------------------------------<br></div><div>arc@arc-System-Produ= ct-Name:~/Documents/mcsim-5.5.0$ sudo su<br>[sudo] password for arc: <br> root@arc-System-Product-Name:/home/arc/Documents/mcsim-5.5.0# make install<= br>Making install in mod<br>make[1]: Entering directory `/home/arc/Document= s/mcsim-5.5.0/mod'<br>make[2]: Entering directory `/home/arc/Documents/= mcsim-5.5.0/mod'<br> /bin/mkdir -p '/usr/local/bin'<br> /bin/bash ../libtool= --mode=3Dinstall /usr/bin/install -c mod '/usr/local/bin&#= 39;<br>libtool: install: /usr/bin/install -c mod /usr/local/bin/mod<br>&nbs= p;/bin/mkdir -p '/usr/local/share/mcsim/mod'<br> /usr/bin/install -c -m 644 getopt.c getopt.h hungtype.h lex.c lex.h l= exerr.c lexerr.h lexfn.c lexfn.h mod.c mod.h modd.c modd.h modi.c modi.h mo= diface.h modiSBML.c modiSBML2.c modiSBML.h modo.c modo.h strutil.c strutil.= h '/usr/local/share/mcsim/mod'<br> make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/mod'<br>mak= e[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/mod'<br>Making= install in sim<br>make[1]: Entering directory `/home/arc/Documents/mcsim-5= .5.0/sim'<br> make[2]: Entering directory `/home/arc/Documents/mcsim-5.5.0/sim'<br>&n= bsp;/bin/mkdir -p '/usr/local/bin'<br> /usr/bin/install -c mak= emcsim makemcsims makemcsimd '/usr/local/bin'<br> /bin/mkdir -= p '/usr/local/lib'<br> /bin/bash ../libtool --mode=3Dinstall /usr/bin/install -c= <a href=3D"http://libmodelu.la" target=3D"_blank">libmodelu.la= </a> <a href=3D"http://libmcsim.la" target=3D"_blank">libmcsim.la</a> '= /usr/local/lib'<br>libtool: install: /usr/bin/install -c .libs/libmodel= u.so.0.0.0 /usr/local/lib/libmodelu.so.0.0.0<br> libtool: install: (cd /usr/local/lib && { ln -s -f libmodelu.so.0.0= .0 libmodelu.so.0 || { rm -f libmodelu.so.0 && ln -s libmodelu.so.0= .0.0 libmodelu.so.0; }; })<br>libtool: install: (cd /usr/local/lib &&am= p; { ln -s -f libmodelu.so.0.0.0 libmodelu.so || { rm -f libmodelu.so &= & ln -s libmodelu.so.0.0.0 libmodelu.so; }; })<br> libtool: install: /usr/bin/install -c .libs/libmodelu.lai /usr/local/lib/<a= href=3D"http://libmodelu.la" target=3D"_blank">libmodelu.la</a><br>libtool= : install: warning: relinking `<a href=3D"http://libmcsim.la" target=3D"_bl= ank">libmcsim.la</a>'<br> libtool: install: (cd /home/arc/Documents/mcsim-5.5.0/sim; /bin/bash /home/= arc/Documents/mcsim-5.5.0/libtool --tag CC --mode=3Drelink gcc -g -O2= -o <a href=3D"http://libmcsim.la" target=3D"_blank">libmcsim.la</a> -rpath= /usr/local/lib getopt.lo lex.lo lexerr.lo lexfn.lo list.lo lsodes1.lo lsod= es2.lo matutil.lo matutilo.lo mh.lo optdsign.lo random.lo sim.lo simi.lo si= minit.lo simmonte.lo simo.lo strutil.lo yourcode.lo <a href=3D"http://libmo= delu.la" target=3D"_blank">libmodelu.la</a> -lm -lgsl -lgslcblas )<br> libtool: relink: gcc -shared -fPIC -DPIC .libs/getopt.o .libs/l= ex.o .libs/lexerr.o .libs/lexfn.o .libs/list.o .libs/lsodes1.o .libs/lsodes= 2.o .libs/matutil.o .libs/matutilo.o .libs/mh.o .libs/optdsign.o .libs/rand= om.o .libs/sim.o .libs/simi.o .libs/siminit.o .libs/simmonte.o .libs/simo.o= .libs/strutil.o .libs/yourcode.o -L/usr/local/lib -lmodelu -lm= -lgsl -lgslcblas -O2 -Wl,-soname -Wl,libmcsim.so.0 -o .l= ibs/libmcsim.so.0.0.0<br> libtool: install: /usr/bin/install -c .libs/libmcsim.so.0.0.0T /usr/local/l= ib/libmcsim.so.0.0.0<br>libtool: install: (cd /usr/local/lib && { l= n -s -f libmcsim.so.0.0.0 libmcsim.so.0 || { rm -f libmcsim.so.0 &&= ln -s libmcsim.so.0.0.0 libmcsim.so.0; }; })<br> libtool: install: (cd /usr/local/lib && { ln -s -f libmcsim.so.0.0.= 0 libmcsim.so || { rm -f libmcsim.so && ln -s libmcsim.so.0.0.0 lib= mcsim.so; }; })<br>libtool: install: /usr/bin/install -c .libs/libmcsim.lai= /usr/local/lib/<a href=3D"http://libmcsim.la" target=3D"_blank">libmcsim.l= a</a><br> libtool: install: /usr/bin/install -c .libs/libmodelu.a /usr/local/lib/libm= odelu.a<br>libtool: install: chmod 644 /usr/local/lib/libmodelu.a<br>libtoo= l: install: ranlib /usr/local/lib/libmodelu.a<br>libtool: install: /usr/bin= /install -c .libs/libmcsim.a /usr/local/lib/libmcsim.a<br> libtool: install: chmod 644 /usr/local/lib/libmcsim.a<br>libtool: install: = ranlib /usr/local/lib/libmcsim.a<br>libtool: finish: PATH=3D"/usr/loca= l/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/g= ames:/sbin" ldconfig -n /usr/local/lib<br> ----------------------------------------------------------------------<br>L= ibraries have been installed in:<br> /usr/local/lib<br><br>If y= ou ever happen to want to link against installed libraries<br>in a given di= rectory, LIBDIR, you must either use libtool, and<br> specify the full pathname of the library, or use the `-LLIBDIR'<br>flag= during linking and do at least one of the following:<br> - add= LIBDIR to the `LD_LIBRARY_PATH' environment variable<br> &n= bsp; during execution<br> - add LIBDIR to the `LD_RUN_PATH' environment variable<br>= during linking<br> - use the `-Wl,-rpa= th -Wl,LIBDIR' linker flag<br> - have your system administr= ator add LIBDIR to `/etc/ld.so.conf'<br><br> See any operating system documentation about shared libraries for<br>more i= nformation, such as the ld(1) and ld.so(8) manual pages.<br>---------------= -------------------------------------------------------<br> /bin/mkdir= -p '/usr/local/include'<br> /usr/bin/install -c -m 644 matutil.h list.h lex.h sim.h lexfn.h hungt= ype.h modiface.h modelu.h random.h yourcode.h '/usr/local/include'<= br> /bin/mkdir -p '/usr/local/share/mcsim/sim'<br> /usr/b= in/install -c -m 644 getopt.c getopt.h hungtype.h lex.c lex.h lexerr.c lexe= rr.h lexfn.c lexfn.h list.c list.h lsodes.h lsodes1.c lsodes2.c matutil.c m= atutil.h matutilo.c matutilo.h mh.c mh.h modiface.h optdsign.c optdsign.h r= andom.c random.h sim.c sim.h simi.c simi.h siminit.c siminit.h simmonte.c s= immonte.h simo.c simo.h strutil.c strutil.h yourcode.c yourcode.h modelu.c = '/usr/local/share/mcsim/sim'<br> /usr/bin/install -c -m 644 modelu.h '/usr/local/share/mcsim/sim&#= 39;<br>make[2]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/sim'= <br>make[1]: Leaving directory `/home/arc/Documents/mcsim-5.5.0/sim'<br= > Making install in doc<br>make[1]: Entering directory `/home/arc/Documents/m= csim-5.5.0/doc'<br>TEXINPUTS=3D".:$TEXINPUTS" \<br> &nbs= p; MAKEINFO=3D'/bin/bash /home/arc/Documents/mcsim-5.5.0/missing = makeinfo -I .' \<br> texi2dvi --build-dir=3Dmcsim.t2d -o mcsim.dvi = ; \<br> mcsim.texinfo<br>/bin/bash: texi2dvi: command not= found<br>make[1]: *** [mcsim.dvi] Error 127<br>make[1]: Leaving directory = `/home/arc/Documents/mcsim-5.5.0/doc'<br> make: *** [install-recursive] Error 1<br><br><br><br></div><div>After that = I go to the "usr/local/bin" directory I didn't find "xmc= sim" in that path.<br></div><div>and the "usr/local/share" d= irectory I didn't find "xmcsim" too. <br> <br></div><div>then, I go to the "mcsim/samples/perc" directory I= started to type "mod perc.model" I got follow this.<br><br>-----= ---------------------------------------------------------------------------= --------------------<br> root@arc-System-Product-Name:/home/arc/Documents/mcsim-5.5.0/samples/perc# = mod perc.model<br><br>________________________________________<br><br>Mod v= 5.5.0 - Model Generator for MCSim<br><br>MCSim and associated software come= s with ABSOLUTELY NO WARRANTY;<br> This is free software, and you are welcome to redistribute it<br>under cert= ain conditions; see the GNU General Public License.<br><br><br>* Created C = model file 'model.c'.<br><br><br><br><br></div><div>After that, I h= ave used "makemcsim perc.model" but mcsim.perc wasn't created= . and I got follow this.<br> </div><div><br>------------------------------------------------------------= --------------------------------------<br></div><div>root@arc-System-Produc= t-Name:/home/arc/Documents/mcsim-5.5.0/samples/perc# makemcsim perc.model<b= r> Creating model.c file from perc.model ...<br><br>__________________________= ______________<br><br>Mod v5.5.0 - Model Generator for MCSim<br><br>MCSim a= nd associated software comes with ABSOLUTELY NO WARRANTY;<br>This is free s= oftware, and you are welcome to redistribute it<br> under certain conditions; see the GNU General Public License.<br><br><br>* = Created C model file 'model.c'.<br><br><br>Compiling model ...<br>m= odel.c:75:15: fatal error: R.h: No such file or directory<br>compilation te= rminated.<br> root@arc-System-Product-Name:/home/arc/Documents/mcsim-5.5.0/samples/perc# = <br><br><br><br></div><div>Cloud you help me please ?<br></div><div><br></d= iv><div>Thank you so much.<br><br></div><div>Arnon <br></div></div> </div> --001a11c2e458523c5004f2f7785d-- --===============8598750794314747477== Content-Type: text/plain; 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