Hi
First off, you really shouldn't be installing mosflm version 7.0.1 -
version 7.0.3 is the current one, and contains numerous bug fixes.
The developers are likely to meet any problem queries relating to
7.0.1 with "update to the current version first, then try again; if
the problem persists, we will look at it"...
Your immediate problem is that you are trying to run a csh script as
a bash script, without editing the file properly; e.g., you can't
just change "setenv" (csh) to "export" (bash) - the syntax is not the
same - you'd need to change it thus -
setenv CCP4_LIB_FILES '-lccp4f -lccp4c -lxdl_view'
would become something like
export CCP4_LIB_FILES='-lccp4f -lccp4c -lxdl_view'
You would also need to change the top line of the file so that it was
something like "#!/bin/bash -f", though I would be more inclined to
use a proper traditional Bourne shell for this and use "#!/bin/sh -f"
and use "set"s and "export"s throughout.
If you really want to run the script, I would use tcsh or csh, rather
than trying to modify it so that it is a bash script.
BTW, the Intel compiler setup in that file is way out of date - you'd
need to change that as well to point to current copies of the compilers.
I would be very strongly inclined to install the "mosflm_linux_suse"
pre-built executable - it should certainly work on FC5, and saves you
the trouble of trying to build it. The speedup by using an executable
compiled with the Intel compiler is probably not that great - recent
g77s and gfortrans give excellent and stable optimization!
On 27 Mar 2008, at 04:57, Lu Yongzhi wrote:
----- Original Message -----
From: Lu Yongzhi
To: ccp4 bb
Sent: Wednesday, March 26, 2008 7:41 PM
Subject: problems about installation of mosflm701
Hi,
My OS is fedoral core 5. I have installed ccp4-6.0.2 which include
the mosflm 6, but I want to install mosflm7.0.1. I downloaded the
program, but I can't install it properly. I source the file
'intel', the echo is (I have changed the 'setenv' to 'export'):
bash: export: `-lccp4f -lccp4c -lxdl_view': not a valid identifier
MOSROOT has been set to
bash: export: `/index': not a valid identifier
bash: export: `/src/dps/util': not a valid identifier
bash: export: `/jpg': not a valid identifier
bash: intel: line 65: syntax error: unexpected end of file
could anyone can help me.
the lines in the 'intel' file are:
#!/bin/csh -fv
#
# setup shell script for the development copies of Mosflm for
different
# platforms.
#
# Common stuff first
#
export CCP4_LIB_FILES '-lccp4f -lccp4c -lxdl_view'
set mosroot = ${cwd:h}
export MOSROOT $mosroot
echo MOSROOT has been set to $MOSROOT
set moshome = ${cwd}
export MOSHOME $moshome
echo $MOSHOME
export AR_FLAGS vru
export DPS ${MOSHOME}
export IND ${MOSHOME}/index
export UTIL ${MOSHOME}/src/dps/util
export JPG ${MOSHOME}/jpg
# intel compiler specifics - change this to your local installation
if ( -e /opt/intel/compiler70/ia32/bin/ifcvars.csh )then
source /opt/intel/compiler70/ia32/bin/ifcvars.csh
else
echo You must either edit the file called \"intel\" to source
the correct
echo ifcvars.csh file or install both the Intel C++ and FORTRAN
compilers
exit
endif
if ( -e /opt/intel/compiler70/ia32/ifc_fudge.o )then
export FUDGE /opt/intel/compiler70/ia32/ifc_fudge.o
export NOFUDGE ""
else
export FUDGE ""
export NOFUDGE -i_dynamic
endif
export DEBUG ""
export F77 "ifc ${DEBUG}"
export FCOMP "${F77}"
export FC "${F77}"
export CC "icc ${DEBUG}"
export FLINK "${F77} ${DEBUG}"
export FFLAGS "-O -align -w90 -cm"
export CFLAGS "-O0 -O -DPROTOTYPE -DIFC -c -w"
# if no "fudge.o" vide infra export LFLAGS "-Vaxlib -i_dynamic"
export LFLAGS "-Vaxlib $NOFUDGE"
#
# (2) Mosflm directory
#
export MOSFLAGS "-O3 -align -w90 -cm"
# export MOSFLAGS "-O3 -align -w90 -cm -prof_gen" this line for
profiling only
# export MOSFLAGS "-O3 -align -w90 -cm -prof_use" & change $F77
etc to include "-ipo" flag
export MCFLAGS "-O0"
export MOSLIBS "-L${CCP4_LIB} ${CCP4_LIB_FILES} -lncurses -L/
usr/X11R6/lib -lXt -lSM -lICE -lX11 -ldl -lpthread -lm ${FUDGE}"
#
# (3) CBF directories
#
export CBFCFLAGS "-O -DPROTOTYPE -DIFC"
# DPS
export VERBOSE "v"
export UTILFLAGS "-O -DPROTOTYPE -DIFC -c -w"
export EXTRAFLAGS "-I${UTIL} "
export STDCFLAGS ""
exit
Harry
--
Dr Harry Powell, MRC Laboratory of Molecular Biology, MRC Centre,
Hills Road, Cambridge, CB2 2QH
