[EMBOSS] problem installing EMBOSS-3.0.0 in FC4

[Iris Vargas Jentzsch]

Hello everybody,

I need some help here. My recent tries to install EMBOSS-3.0.0 have been 
mostly unsuccessfull. I am working with a Fedora Core 4 Linux 
installation. After ./configure when I issue the command make, at the 
beginning it seems to work fine but it gets to some point in 
/pkg/EMBOSS-3.0.0/emboss/data after installing the libraries I guess, 
where it can’t go further. Here are the messages I get, I did cut a huge 
part in the middle that seemed to have no error messages (although it 
seemed to be the same over and over again... however if someone needs 
the whole long message I can post it.

[root at localhost EMBOSS-3.0.0]# make
Making all in plplot
make[1]: Entering directory `/pkg/EMBOSS-3.0.0/plplot'
Making all in lib
make[2]: Entering directory `/pkg/EMBOSS-3.0.0/plplot/lib'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/pkg/EMBOSS-3.0.0/plplot/lib'
make[2]: Entering directory `/pkg/EMBOSS-3.0.0/plplot'
if /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" 
-DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" 
-DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"3.0.0\" 
-DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 
-DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 
-DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 
-DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 
-DHAVE_STRFTIME=1 -DHAVE_UNISTD_H=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 
-DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 
-DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I. -I/usr/X11R6/include 
-I./ -I/usr/include/gd -DPREFIX=\"/usr/local\" 
-DEMBOSS_TOP=\"/pkg/EMBOSS-3.0.0\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 
-D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -O2 -MT 
pdfutils.lo -MD -MP -MF ".deps/pdfutils.Tpo" -c -o pdfutils.lo pdfutils.c; \
then mv -f ".deps/pdfutils.Tpo" ".deps/pdfutils.Plo"; else rm -f 
".deps/pdfutils.Tpo"; exit 1; fi
mkdir .libs
.
.
.
.
.
gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" 
-DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" 
-DVERSION=\"3.0.0\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 
-DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 
-DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 
-DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DHAVE_DIRENT_H=1 
-DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 
-DHAVE_UNISTD_H=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 
-DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 
-DPLD_png=1 -I. -I. -I../plplot -I/usr/X11R6/include -I./ -I../ajax 
-DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -O2 -MT embword.lo -MD -MP -MF 
.deps/embword.Tpo -c embword.c -fPIC -DPIC -o .libs/embword.o
gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" 
-DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" 
-DVERSION=\"3.0.0\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 
-DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 
-DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 
-DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DHAVE_DIRENT_H=1 
-DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 
-DHAVE_UNISTD_H=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 
-DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 
-DPLD_png=1 -I. -I. -I../plplot -I/usr/X11R6/include -I./ -I../ajax 
-DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -O2 -MT embword.lo -MD -MP -MF 
.deps/embword.Tpo -c embword.c -o embword.o >/dev/null 2>&1
/bin/sh ../libtool --tag=CC --mode=link gcc -O2 -o libnucleus.la -rpath 
/usr/local/lib -version-info 3:0:0 embaln.lo embcom.lo embcons.lo 
embdata.lo embdbi.lo embdmx.lo embdomain.lo embest.lo embexit.lo 
embgroup.lo embiep.lo embindex.lo embinit.lo embmat.lo embmisc.lo 
embmol.lo embnmer.lo embpat.lo embprop.lo embpdb.lo embread.lo embsig.lo 
embshow.lo embword.lo
gcc -shared .libs/embaln.o .libs/embcom.o .libs/embcons.o 
.libs/embdata.o .libs/embdbi.o .libs/embdmx.o .libs/embdomain.o 
.libs/embest.o .libs/embexit.o .libs/embgroup.o .libs/embiep.o 
.libs/embindex.o .libs/embinit.o .libs/embmat.o .libs/embmisc.o 
.libs/embmol.o .libs/embnmer.o .libs/embpat.o .libs/embprop.o 
.libs/embpdb.o .libs/embread.o .libs/embsig.o .libs/embshow.o 
.libs/embword.o -Wl,-soname -Wl,libnucleus.so.3 -o .libs/libnucleus.so.3.0.0
(cd .libs && rm -f libnucleus.so.3 && ln -s libnucleus.so.3.0.0 
libnucleus.so.3)
(cd .libs && rm -f libnucleus.so && ln -s libnucleus.so.3.0.0 libnucleus.so)
ar cru .libs/libnucleus.a embaln.o embcom.o embcons.o embdata.o embdbi.o 
embdmx.o embdomain.o embest.o embexit.o embgroup.o embiep.o embindex.o 
embinit.o embmat.o embmisc.o embmol.o embnmer.o embpat.o embprop.o 
embpdb.o embread.o embsig.o embshow.o embword.o
ranlib .libs/libnucleus.a
creating libnucleus.la
(cd .libs && rm -f libnucleus.la && ln -s ../libnucleus.la libnucleus.la)
make[1]: Leaving directory `/pkg/EMBOSS-3.0.0/nucleus'
Making all in emboss
make[1]: Entering directory `/pkg/EMBOSS-3.0.0/emboss'
Making all in acd
make[2]: Entering directory `/pkg/EMBOSS-3.0.0/emboss/acd'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss/acd'
Making all in data
make[2]: Entering directory `/pkg/EMBOSS-3.0.0/emboss/data'
Making all in AAINDEX
make[3]: Entering directory `/pkg/EMBOSS-3.0.0/emboss/data/AAINDEX'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss/data/AAINDEX'
Making all in CODONS
make[3]: Entering directory `/pkg/EMBOSS-3.0.0/emboss/data/CODONS'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss/data/CODONS'
Making all in REBASE
make[3]: Entering directory `/pkg/EMBOSS-3.0.0/emboss/data/REBASE'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss/data/REBASE'
Making all in PRINTS
make[3]: Entering directory `/pkg/EMBOSS-3.0.0/emboss/data/PRINTS'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss/data/PRINTS'
Making all in PROSITE
make[3]: Entering directory `/pkg/EMBOSS-3.0.0/emboss/data/PROSITE'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss/data/PROSITE'
make[3]: Entering directory `/pkg/EMBOSS-3.0.0/emboss/data'
make[3]: *** No rule to make target `EBLOSUMN', needed by `all-am'. Stop.
make[3]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss/data'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss/data'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/pkg/EMBOSS-3.0.0/emboss'
make: *** [all-recursive] Error 1


I’ll appreciate very much if you can give me a hand with this. Thank you!

Iris