From: 王瑞 <wangrui704
I am sorry for a little off-topic! Could anyone tells me how to install voidoo on 32-bits ubuntu11.10 ?
----------
From: Tim Gruene
Hi ,
I could not find error messages but only some warnings. Why do you think
anything goes wrong?
I recommend you repost your scientific question at the very end again
with a different thread as I guess that most readers will not have made
it through to the end of your email.
Best,
Tim
- --
- --
Dr Tim Gruene
Institut fuer anorganische Chemie
I am sorry for a little off-topic! Could anyone tells me how to install voidoo on 32-bits ubuntu11.10 ?
For its distribution kit on http://xray.bmc.uu.se/markh/usf/, I have downloaded the distribution kit and Liniux_32_binaries executables, and followed their tutorial, but something goes wrong:
if ( != ) continue
if ( -d sod && -e sod/Makefile_linux ) then
echo Building sod
Building sod
cd sod
rm sod sod.o
cat Makefile_linux
#
OBJ= sod.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a
EXEC = sod
INCL= Makefile_linux
SUBS =
STATIC =
##SUBS## SUBS = sod_subs.o
INCL = Makefile_linux sod.incl
##STATIC## STATIC = -static
fc = gfortran -DLINUX -m32
opt= -O -u -ffixed-line-length-132 -I..
link= -O
$(EXEC): $(OBJ) $(SUBS)
$(fc) $(link) -o $(EXEC) $(SUBS) $(OBJ) $(STATIC) ; strip $(EXEC)
sod.o: sod.fpp $(INCL)
$(fc) $(opt) -c sod.fpp
##SUBS## sod_subs.o: sod_subs.fpp $(INCL)
##SUBS## $(fc) $(opt) -c sod_subs.fpp
make -f Makefile_linux
gfortran -DLINUX -m32 -O -u -ffixed-line-length-132 -I.. -c sod.fpp
gfortran -DLINUX -m32 -O -o sod sod.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a ; strip sod
cp sod /home/dell/Documents/usf/usf_export/bin
cd ..
endif
end
if ( != && != solex ) continue
if ( solex == gklib || solex == bin || solex == rave_package ) continue
set ccp4_flag = `echo $prog | grep ccp4`
grep ccp4
echo solex
if ( != ) continue
if ( -d solex && -e solex/Makefile_linux ) then
echo Building solex
Building solex
cd solex
rm solex solex.o
cat Makefile_linux
#
OBJ= solex.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a
EXEC = solex
INCL= Makefile_linux
SUBS =
STATIC =
##SUBS## SUBS = solex_subs.o
##INCL## INCL = Makefile_linux solex.incl
##STATIC## STATIC = -static
fc = gfortran -DLINUX -m32
opt= -O -u -ffixed-line-length-132 -I..
link= -O
$(EXEC): $(OBJ) $(SUBS)
$(fc) $(link) -o $(EXEC) $(SUBS) $(OBJ) $(STATIC) ; strip $(EXEC)
solex.o: solex.fpp $(INCL)
$(fc) $(opt) -c solex.fpp
##SUBS## solex_subs.o: solex_subs.fpp $(INCL)
##SUBS## $(fc) $(opt) -c solex_subs.fpp
make -f Makefile_linux
gfortran -DLINUX -m32 -O -u -ffixed-line-length-132 -I.. -c solex.fpp
solex.fpp:71.24:
call dosole (%val(iaptr),%val(ibptr),mapsize,masksize)
1
Warning: Type mismatch in argument 'mapa' at (1); passed INTEGER(4) to REAL(4)
gfortran -DLINUX -m32 -O -o solex solex.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a ; strip solex
cp solex /home/dell/Documents/usf/usf_export/bin
cd ..
endif
end
if ( != && != spancsi ) continue
if ( spancsi == gklib || spancsi == bin || spancsi == rave_package ) continue
set ccp4_flag = `echo $prog | grep ccp4`
grep ccp4
echo spancsi
if ( != ) continue
if ( -d spancsi && -e spancsi/Makefile_linux ) then
echo Building spancsi
Building spancsi
cd spancsi
rm spancsi spancsi.o
cat Makefile_linux
#
OBJ= spancsi.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a
EXEC = spancsi
INCL= Makefile_linux
SUBS =
STATIC =
##SUBS## SUBS = spancsi_subs.o
##INCL## INCL = Makefile_linux spancsi.incl
##STATIC## STATIC = -static
fc = gfortran -DLINUX -m32
opt= -O -u -ffixed-line-length-132 -I..
link= -O
$(EXEC): $(OBJ) $(SUBS)
$(fc) $(link) -o $(EXEC) $(SUBS) $(OBJ) $(STATIC) ; strip $(EXEC)
spancsi.o: spancsi.fpp $(INCL)
$(fc) $(opt) -c spancsi.fpp
##SUBS## spancsi_subs.o: spancsi_subs.fpp $(INCL)
##SUBS## $(fc) $(opt) -c spancsi_subs.fpp
make -f Makefile_linux
gfortran -DLINUX -m32 -O -u -ffixed-line-length-132 -I.. -c spancsi.fpp
spancsi.fpp:69.24:
call dospan (%val(iaptr),%val(ibptr),%val(idptr),
1
Warning: Type mismatch in argument 'mapa' at (1); passed INTEGER(4) to REAL(4)
gfortran -DLINUX -m32 -O -o spancsi spancsi.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a ; strip spancsi
cp spancsi /home/dell/Documents/usf/usf_export/bin
cd ..
endif
end
if ( != && != ssencs ) continue
if ( ssencs == gklib || ssencs == bin || ssencs == rave_package ) continue
set ccp4_flag = `echo $prog | grep ccp4`
grep ccp4
echo ssencs
if ( != ) continue
if ( -d ssencs && -e ssencs/Makefile_linux ) then
echo Building ssencs
Building ssencs
cd ssencs
rm ssencs ssencs.o
cat Makefile_linux
#
OBJ= ssencs.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a
EXEC = ssencs
INCL= Makefile_linux
SUBS =
STATIC =
##SUBS## SUBS = ssencs_subs.o
##INCL## INCL = Makefile_linux ssencs.incl
##STATIC## STATIC = -static
fc = gfortran -DLINUX -m32
opt= -O -u -ffixed-line-length-132 -I..
link= -O
$(EXEC): $(OBJ) $(SUBS)
$(fc) $(link) -o $(EXEC) $(SUBS) $(OBJ) $(STATIC) ; strip $(EXEC)
ssencs.o: ssencs.fpp $(INCL)
$(fc) $(opt) -c ssencs.fpp
##SUBS## ssencs_subs.o: ssencs_subs.fpp $(INCL)
##SUBS## $(fc) $(opt) -c ssencs_subs.fpp
make -f Makefile_linux
gfortran -DLINUX -m32 -O -u -ffixed-line-length-132 -I.. -c ssencs.fpp
gfortran -DLINUX -m32 -O -o ssencs ssencs.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a ; strip ssencs
cp ssencs /home/dell/Documents/usf/usf_export/bin
cd ..
endif
end
if ( != && != usf_osx_bin ) continue
if ( usf_osx_bin == gklib || usf_osx_bin == bin || usf_osx_bin == rave_package ) continue
set ccp4_flag = `echo $prog | grep ccp4`
grep ccp4
echo usf_osx_bin
if ( != ) continue
if ( -d usf_osx_bin && -e usf_osx_bin/Makefile_linux ) then
echo Building usf_osx_bin
Building usf_osx_bin
cd usf_osx_bin
rm usf_osx_bin usf_osx_bin.o
rm: cannot remove `usf_osx_bin': No such file or directory
rm: cannot remove `usf_osx_bin.o': No such file or directory
cat Makefile_linux
#
OBJ= usf_osx_bin.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a
EXEC = usf_osx_bin
INCL= Makefile_linux
SUBS =
STATIC =
##SUBS## SUBS = usf_osx_bin_subs.o
##INCL## INCL = Makefile_linux usf_osx_bin.incl
##STATIC## STATIC = -static
fc = gfortran -DLINUX -m32
opt= -O -u -ffixed-line-length-132 -I..
link= -O
$(EXEC): $(OBJ) $(SUBS)
$(fc) $(link) -o $(EXEC) $(SUBS) $(OBJ) $(STATIC) ; strip $(EXEC)
usf_osx_bin.o: usf_osx_bin.fpp $(INCL)
$(fc) $(opt) -c usf_osx_bin.fpp
##SUBS## usf_osx_bin_subs.o: usf_osx_bin_subs.fpp $(INCL)
##SUBS## $(fc) $(opt) -c usf_osx_bin_subs.fpp
make -f Makefile_linux
make: *** No rule to make target `usf_osx_bin.fpp', needed by `usf_osx_bin.o'. Stop.
cp usf_osx_bin /home/dell/Documents/usf/usf_export/bin
cp: cannot stat `usf_osx_bin': No such file or directory
cd ..
endif
end
if ( != && != voidoo ) continue
if ( voidoo == gklib || voidoo == bin || voidoo == rave_package ) continue
set ccp4_flag = `echo $prog | grep ccp4`
grep ccp4
echo voidoo
if ( != ) continue
if ( -d voidoo && -e voidoo/Makefile_linux ) then
echo Building voidoo
Building voidoo
cd voidoo
rm voidoo voidoo.o
cat Makefile_linux
#
OBJ= voidoo.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a
EXEC = voidoo
INCL= Makefile_linux
SUBS =
STATIC =
SUBS = voidoo_subs.o
INCL = Makefile_linux voidoo.incl
##STATIC## STATIC = -static
fc = gfortran -DLINUX -m32
opt= -O -u -ffixed-line-length-132 -I..
link= -O
$(EXEC): $(OBJ) $(SUBS)
$(fc) $(link) -o $(EXEC) $(SUBS) $(OBJ) $(STATIC) ; strip $(EXEC)
voidoo.o: voidoo.fpp $(INCL)
$(fc) $(opt) -c voidoo.fpp
voidoo_subs.o: voidoo_subs.fpp $(INCL)
$(fc) $(opt) -c voidoo_subs.fpp
make -f Makefile_linux
gfortran -DLINUX -m32 -O -u -ffixed-line-length-132 -I.. -c voidoo.fpp
gfortran -DLINUX -m32 -O -u -ffixed-line-length-132 -I.. -c voidoo_subs.fpp
gfortran -DLINUX -m32 -O -o voidoo voidoo_subs.o voidoo.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a ; strip voidoo
cp voidoo /home/dell/Documents/usf/usf_export/bin
cd ..
endif
end
if ( != && != xpand ) continue
if ( xpand == gklib || xpand == bin || xpand == rave_package ) continue
set ccp4_flag = `echo $prog | grep ccp4`
grep ccp4
echo xpand
if ( != ) continue
if ( -d xpand && -e xpand/Makefile_linux ) then
echo Building xpand
Building xpand
cd xpand
rm xpand xpand.o
cat Makefile_linux
#
OBJ= xpand.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a
EXEC = xpand
INCL= Makefile_linux
SUBS =
STATIC =
##SUBS## SUBS = xpand_subs.o
INCL = Makefile_linux xpand.incl
##STATIC## STATIC = -static
fc = gfortran -DLINUX -m32
opt= -O -u -ffixed-line-length-132 -I..
link= -O
$(EXEC): $(OBJ) $(SUBS)
$(fc) $(link) -o $(EXEC) $(SUBS) $(OBJ) $(STATIC) ; strip $(EXEC)
xpand.o: xpand.fpp $(INCL)
$(fc) $(opt) -c xpand.fpp
##SUBS## xpand_subs.o: xpand_subs.fpp $(INCL)
##SUBS## $(fc) $(opt) -c xpand_subs.fpp
make -f Makefile_linux
gfortran -DLINUX -m32 -O -u -ffixed-line-length-132 -I.. -c xpand.fpp
xpand.fpp:193.5:
1990 continue
1
xpand.fpp:207.72:
if (ierr .ne. 0) goto 1990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:140.5:
1000 continue
1
xpand.fpp:211.72:
if (length(ncsfil) .lt. 1) goto 1000
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:193.5:
1990 continue
1
xpand.fpp:231.72:
if (ierr .ne. 0) goto 1990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:193.5:
1990 continue
1
xpand.fpp:235.72:
if (ierr .ne. 0) goto 1990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:426.5:
2990 continue
1
xpand.fpp:258.72:
if (ierr .ne. 0) goto 2990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:426.5:
2990 continue
1
xpand.fpp:267.72:
if (ierr .ne. 0) goto 2990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:426.5:
2990 continue
1
xpand.fpp:277.72:
if (ierr .ne. 0) goto 2990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:426.5:
2990 continue
1
xpand.fpp:442.72:
if (ierr .ne. 0) goto 2990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:426.5:
2990 continue
1
xpand.fpp:447.72:
if (ierr .ne. 0) goto 2990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:426.5:
2990 continue
1
xpand.fpp:451.72:
if (ierr .ne. 0) goto 2990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
xpand.fpp:193.5:
1990 continue
1
xpand.fpp:467.72:
goto 1990
2
Warning: Label at (1) is not in the same block as the GOTO statement at (2)
gfortran -DLINUX -m32 -O -o xpand xpand.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a ; strip xpand
cp xpand /home/dell/Documents/usf/usf_export/bin
cd ..
endif
end
if ( != && != xplo2d ) continue
if ( xplo2d == gklib || xplo2d == bin || xplo2d == rave_package ) continue
set ccp4_flag = `echo $prog | grep ccp4`
grep ccp4
echo xplo2d
if ( != ) continue
if ( -d xplo2d && -e xplo2d/Makefile_linux ) then
echo Building xplo2d
Building xplo2d
cd xplo2d
rm xplo2d xplo2d.o
cat Makefile_linux
#
OBJ= xplo2d.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a
EXEC = xplo2d
INCL= Makefile_linux
SUBS =
STATIC =
##SUBS## SUBS = xplo2d_subs.o
##INCL## INCL = Makefile_linux xplo2d.incl
##STATIC## STATIC = -static
fc = gfortran -DLINUX -m32
opt= -O -u -ffixed-line-length-132 -I..
link= -O
$(EXEC): $(OBJ) $(SUBS)
$(fc) $(link) -o $(EXEC) $(SUBS) $(OBJ) $(STATIC) ; strip $(EXEC)
xplo2d.o: xplo2d.fpp $(INCL)
$(fc) $(opt) -c xplo2d.fpp
##SUBS## xplo2d_subs.o: xplo2d_subs.fpp $(INCL)
##SUBS## $(fc) $(opt) -c xplo2d_subs.fpp
make -f Makefile_linux
gfortran -DLINUX -m32 -O -u -ffixed-line-length-132 -I.. -c xplo2d.fpp
xplo2d.fpp:3264.469:
\u0141\U00115186\U09B13EF8\U09C4E140
1
Warning: Extraneous characters in format at (1)
xplo2d.fpp:3272.476:
1
Warning: Extraneous characters in format at (1)
xplo2d.fpp:3280.483:
1
Warning: Extraneous characters in format at (1)
xplo2d.fpp:3286.486:
= list of atoms
1
Warning: Extraneous characters in format at (1)
gfortran -DLINUX -m32 -O -o xplo2d xplo2d.o ../gklib/linux_kleylib ../ccp4libs_latest_m32_linux/libccp4f.a ../ccp4libs_latest_m32_linux/libccp4c.a ; strip xplo2d
cp xplo2d /home/dell/Documents/usf/usf_export/bin
cd ..
endif
end
goto exit
exit 0
I have installed gfortran, could anyone help me ?
By the way, could you give some advice on calculate the size of a pocket in the inside of a protein ?
Thanks for your attention !
----------
From: Tim Gruene
Hi ,
I could not find error messages but only some warnings. Why do you think
anything goes wrong?
I recommend you repost your scientific question at the very end again
with a different thread as I guess that most readers will not have made
it through to the end of your email.
Best,
Tim
- --
- --
Dr Tim Gruene
Institut fuer anorganische Chemie
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