Dear all
I have been fighting to solve this problem in running buster and would
appreciate any advice on the subject (errors shown below).
I have installed ccp4-6.3.0 and buster gives me now an error related to
environ.def
It runs without any problems with the previous version of ccp4 and the
exact same files, in another linux computer
*I have the following info regarding ccp4 and buster paths on my .bashrc*
# Added by CCP4 package manager:
source /usr/local/xtal/ccp4-6.3.0/bin/ccp4.setup-sh
alias ccp4i='/usr/local/xtal/ccp4-6.3.0/ccp4i.sh'
alias ccp4mg='/usr/local/xtal/ccp4mg-2.6.2/bin/ccp4mg'
alias coot='/usr/local/xtal/coot-0.6.2/bin/coot'
# buster
source /home/sylvie/buster/setup.sh
*****
I have tried to include in my bashrc what was reccomended for other
versions such as:
source /usr/local/xtal/ccp4-6.3.0/setup-scripts/ccp4.setup-sh
source /usr/local/xtal/ccp4-6.3.0/include/ccp4.setup-sh
and also:
export PATH=/usr/local/xtal/ccp4-6.3.0/bin:$PATH
export PATH=/usr/local/xtal/ccp4-6.3.0/include:$PATH
and I tried to source directly on the terminal window, which should
really be the same, but nothing really worked.
and in case you were wondering about the location of my programs:
CCP4
/usr/local/xtal/ccp4-6.3.0
and buster
/home/sylvie/buster
*****
*this is the error shown on the top of the mtzchk log:*
>>>>>> CCP4 library signal ccp4_general:Cannot open environ.def (Error)
raised in ccp4fyp <<<<<<
mtzdump: Cannot open environ.def
mtzdump: Cannot open environ.def
*this is the resulting error when running buster:*
>>> mtzchk >>>
>>> mtzchk >>> Extracted from file busterTest10/mtzchk.2.log :
>>> mtzchk >>>
>>> mtzchk >>> ERROR : [mtzchk-0012] something wrong with the CCP4
>>> mtzchk >>> functionality - see
>>> mtzchk >>> /tmp/sylvie-1347365301-mtzchk__10236.log
>>> mtzchk >>>
ERROR : [refine-0022] a check of the input MTZ file
(/lbs2c/nessler/T3SS/SlrP/ID29nov10/MBII63/CollSr1/xds_process_Sr1w1_1/XDS_ASCII_test_scala1.mtz)
gave an error - even after we tried to fix it. For
details see above and busterTest10/mtzchk.2.log. If
you don't want to do these checks (and want to use
the MTZ file as it is): please use the command-line
option UseMtzchk="no". You'd be doing this at your
own risk and don't recommend this!
more info regarding computer in question (linux centos 64 bit) and such:
echo $PATH
/home/sylvie/buster/MakeTNT/bin:/home/sylvie/buster/scripts:/home/sylvie/buster/autoBUSTER/bin/linux64:/home/sylvie/buster/adm/bin:/usr/local/phenix-1.8-1069/build/intel-linux-2.6-x86_64/bin:/usr/local/xtal/XDS-INTEL64_Linux_x86_64:/usr/local/xtal/arp_warp_7.3/bin/bin-x86_64-Linux:/usr/local/xtal/ccp4-6.3.0/share/dbccp4i/bin:/usr/local/xtal/ccp4-6.3.0/share/ccp4i/bin:/usr/local/xtal/ccp4-6.3.0/bin:/usr/local/xtal/ccp4-6.3.0/etc:/usr/kerberos/bin:/usr/local/bin:/usr/bin:/bin:/usr/X11R6/bin:/usr/local/xtal/ccp4-6.3.0/share/xia2/xia2core//Test:/usr/local/xtal/ccp4-6.3.0/share/xia2/xia2//Applications:/home/sylvie/bin
--
*****************************************
Rosa Grenha, PhD
I.B.B.M.C.
Bāt 430
University Paris XI
91 405 ORSAY Cedex 1
France
Tel: +33 1 69157970
Fax: +33 1 69853715
Email: [log in to unmask]
