When I "upgraded" to ibex it hosed my display, so this might not be of
much help, but in general,
1. You don't HAVE to use bash. You can use tcsh or zsh or any other
shell that suits your personal tastes. It just comes with a minimal
install to fit on a CD. Just issue
sudo apt-get install tcsh zsh
and you will have three shells to choose from.
2. To use tcsh, you can issue a command such as (after installing the
above),
chsh -s /bin/tcsh
(or even better, chsh -s /bin/zsh ).
3. You are right: setenv is indicates tcsh or csh
4. You can add directories to your path in any relevant startup
script or on the command line for that matter.
For all but tcsh and csh, use this syntax:
PATH=${PATH}:/your/new/directory ; export PATH
For tcsh and csh, use
setenv PATH ${PATH}:/your/new/directory
On Dec 19, 2008, at 6:01 PM, Victor Alves wrote:
*
*
*
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
__________________________
----------------------------------------------------------------
This message was sent using IMP, the Internet Messaging Program.
