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Hi
Doing my first installation of CCP4 and also a Linux newbie, so try
to ?bear with me? ;-)
The ?install.sh? CCP4 script created a ?setup-scripts? directory,
with 2 shell subdirectories; ?csh? and ?sh?
In ?/home/victor/.bashrc? I found 2 lines:
source /usr/local/xtal/ccp4/setup-scripts/sh/ccp4.setup
source /usr/local/xtal/ccp4/setup-scripts/sh/ccp4-others.setup
So, I assume it is using the ccp4.setup-sh file.
But Ubuntu Intrepid 8.10 uses ?bash?. If I type ?echo $SHELL?, it
gives me /bin/bash, and Bash doesn?t use ?setenv? but ?export? (so I
read).
1-Academic question: If I were to do a manual installation and
chose, as a template for ?ccp4.setup?, the file?ccp4.setup-bash?
(which uses ?setenv?) would I get into trouble?
2-If Ubuntu uses a ?bash? shell, why it is not using ?ccp4.setup-bash?
3-Which ?ccp4.setup? file is CCP4 using?:
a) ?usr/local/xtal/ccp4/ccp4-6.1.0/include? or
b) ?/usr/local/xtal/ccp4/setup-scripts/sh/ccp4.setup?
4-I manually installed CCP4MG and the instructions state to ?Add
the CCP4mg "bin" directory to your PATH in ccp4.setup?, but the only
place I found to do this was in
?/usr/local/xtal/ccp4/setup-scripts/sh/CCP4-OTHERS.SETUP? not
?ccp4.setup?.
So I did:
sudo gedit /usr/local/xtal/ccp4/setup-scripts/sh/ccp4-others.setup
Added the following line, (right after a similar one for COOT):
/usr/local/xtal/ccp4/ccp4mg-1.1.1/bin:
After Login, I now have 2 lines for CCP4MG-1.1.1/BIN. What did I do wrong?
echo $PATH (I reformatted one statement per line, for easier reading)
/usr/local/xtal/ccp4/graphviz-2.20.2/bin:
/usr/local/xtal/ccp4/fasta-35.4.1/bin:
/usr/local/xtal/ccp4/clustalw-2.0.9/bin:
/usr/local/xtal/ccp4/tcltk++/bin:
/usr/local/xtal/ccp4/Python-2.4.5/bin:
/usr/local/xtal/ccp4/ccp4-6.1.0//bin:
/usr/local/xtal/ccp4/ccp4-6.1.0/bin:
/usr/local/xtal/ccp4/Coot-0.5/bin:
/USR/LOCAL/XTAL/CCP4/CCP4MG-1.1.1/BIN:
/USR/LOCAL/XTAL/CCP4/CCP4MG-1.1.1/BIN:
/usr/local/xtal/ccp4/ccp4-6.1.0/share/dbccp4i/bin:
/usr/local/xtal/ccp4/ccp4-6.1.0/ccp4i/bin:
/usr/local/xtal/ccp4/ccp4-6.1.0/bin:
/usr/local/xtal/ccp4/ccp4-6.1.0/etc:
/usr/local/xtal/ccp4/ccp4-6.1.0/share/XIAROOT/xia2//binaries/linux_386:
/usr/local/sbin:
/usr/local/bin:
/usr/sbin:
/usr/bin:
/sbin:
/bin:
/usr/games:
/usr/local/xtal/chimera/bin:
/usr/local/xtal/ccp4/ccp4-6.1.0/share/XIAROOT/xia2core//Test:
/usr/local/xtal/ccp4/ccp4-6.1.0/share/XIAROOT/xia2core//Test/Compiled/linux_386:
/usr/local/xtal/ccp4/ccp4-6.1.0/share/XIAROOT/xia2//Applications
Thank you for your patience
Victor Alves
______________________________
VICTOR DIOGO ALVES, DVM PhD
Professor Auxiliar
Faculdade de Medicina Veterinaria
UTL - Lisboa
__________________________
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