Re: [ccp4bb] imosflm STARTDIR
Hi folks
The real problem here is that the "imosflm" you run by default after
installing the latest CCP4 is a shell script in $CBIN (i.e. where all
the compiled programs are), which doesn't actually set things up
properly. This has been addressed by the guys in Daresbury and the fix
will appear in the next release (after which you should be able to
ignore the rest of this message).
If, on the other hand, you run the "imosflm" in the directory $CCP4/
ccp4i/imosflm/src, everything should be hunky-dory - you can do this
by setting your PATH environment variable so it finds this script
first, e.g. in tcsh -
setenv PATH "$CCP4/ccp4i/imosflm/src":$PATH
_after_ doing the normal source'ing ccp4.setup; then "imosflm" on the
command line should work.
The other option would be to install imosflm from our web-pages and
run that, but since this is currently the one that ccp4 distribute
there's no obvious advantage to that, other than removing the ambiguity.
HTH
On 19 Mar 2009, at 10:03, Williams, MA (Mark) wrote:
imosflm also takes the command line switch --startdir so you could try
an alias of
alias imosflm='imosflm --startdir $PWD'
Mark
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
William G. Scott
Sent: 18 March 2009 17:17
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] imosflm STARTDIR
You could try something like this (bash/zsh/sh):
alias imosflm='MOSDIR=${PWD} imosflm'
The single quotes are required for it to do the right thing.
Bill
On Mar 18, 2009, at 6:49 AM, James Foadi wrote:
Dear MOSFLM/IMOSFLM people,
when I start the new version of imosflm I expect it to dump files and
to search all files starting from the current directory. This doesn't
seem to be the case. It appears it always starts from MOSDIR. I my
imosflm.tcl the line related to STARTDIR is:
set STARTDIR [pwd]
Perhaps somebody else has written about this, but if this is the
case,
I have missed the thread.
Can somebody help me with this?
J
Dr James Foadi PhD
Membrane Protein Laboratory
Diamond Light Source Ltd.
Diamond House
Harwell Science and Innovation Campus
Didcot
Oxfordshire
OX11 0DE
United Kingdom
office email: james.fo...@diamond.ac.uk alternative email:
j.fo...@imperial.ac.uk
This e-mail and any attachments may
contain confidential, copyright and or privileged material, and are
for the use of the intended addressee only. If you are not the
intended addressee or an authorised recipient of the addressee
please notify us of receipt by returning the e-mail and do not use,
copy, retain, distribute or disclose the information in or attached
to the e-mail.
Any opinions expressed within this e-mail are those of the
individual and not necessarily of Diamond Light Source Ltd.
Diamond Light Source Ltd. cannot guarantee that this e-mail or any
attachments are free from viruses and we cannot accept liability for
any damage which you may sustain as a result of software viruses
which may be transmitted in or with the message.
Diamond Light Source Limited (company no. 4375679). Registered in
England and Wales with its registered office at Diamond House,
Harwell Science and Innovation Campus, Didcot, Oxfordshire, OX11
0DE, United Kingdom
--
Scanned by iCritical.
Harry
--
Dr Harry Powell, MRC Laboratory of Molecular Biology, MRC Centre,
Hills Road, Cambridge, CB2 0QH
Re: [ccp4bb] imosflm STARTDIR
imosflm also takes the command line switch --startdir so you could try
an alias of
alias imosflm='imosflm --startdir $PWD'
Mark
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
William G. Scott
Sent: 18 March 2009 17:17
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] imosflm STARTDIR
You could try something like this (bash/zsh/sh):
alias imosflm='MOSDIR=${PWD} imosflm'
The single quotes are required for it to do the right thing.
Bill
On Mar 18, 2009, at 6:49 AM, James Foadi wrote:
> Dear MOSFLM/IMOSFLM people,
> when I start the new version of imosflm I expect it to dump files and
> to search all files starting from the current directory. This doesn't
> seem to be the case. It appears it always starts from MOSDIR. I my
> imosflm.tcl the line related to STARTDIR is:
>
> set STARTDIR [pwd]
>
>
> Perhaps somebody else has written about this, but if this is the case,
> I have missed the thread.
>
> Can somebody help me with this?
>
> J
>
> Dr James Foadi PhD
> Membrane Protein Laboratory
> Diamond Light Source Ltd.
> Diamond House
> Harwell Science and Innovation Campus
> Didcot
> Oxfordshire
> OX11 0DE
> United Kingdom
>
>
> office email: james.fo...@diamond.ac.uk alternative email:
> j.fo...@imperial.ac.uk
>
>
>
This e-mail and any attachments may contain
confidential, copyright and or privileged material, and are for the use of the
intended addressee only. If you are not the intended addressee or an authorised
recipient of the addressee please notify us of receipt by returning the e-mail
and do not use, copy, retain, distribute or disclose the information in or
attached to the e-mail.
Any opinions expressed within this e-mail are those of the individual and not
necessarily of Diamond Light Source Ltd.
Diamond Light Source Ltd. cannot guarantee that this e-mail or any attachments
are free from viruses and we cannot accept liability for any damage which you
may sustain as a result of software viruses which may be transmitted in or with
the message.
Diamond Light Source Limited (company no. 4375679). Registered in England and
Wales with its registered office at Diamond House, Harwell Science and
Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom
--
Scanned by iCritical.
Re: [ccp4bb] imosflm STARTDIR
You could try something like this (bash/zsh/sh):
alias imosflm='MOSDIR=${PWD} imosflm'
The single quotes are required for it to do the right thing.
Bill
On Mar 18, 2009, at 6:49 AM, James Foadi wrote:
Dear MOSFLM/IMOSFLM people,
when I start the new version of imosflm I expect it to dump files
and to search all files
starting from the current directory. This doesn't seem to be the
case. It appears it always
starts from MOSDIR. I my imosflm.tcl the line related to STARTDIR is:
set STARTDIR [pwd]
Perhaps somebody else has written about this, but if this is the
case, I have missed the thread.
Can somebody help me with this?
J
Dr James Foadi PhD
Membrane Protein Laboratory
Diamond Light Source Ltd.
Diamond House
Harwell Science and Innovation Campus
Didcot
Oxfordshire
OX11 0DE
United Kingdom
office email: james.fo...@diamond.ac.uk
alternative email: j.fo...@imperial.ac.uk
[ccp4bb] imosflm STARTDIR
Dear MOSFLM/IMOSFLM people, when I start the new version of imosflm I expect it to dump files and to search all files starting from the current directory. This doesn't seem to be the case. It appears it always starts from MOSDIR. I my imosflm.tcl the line related to STARTDIR is: set STARTDIR [pwd] Perhaps somebody else has written about this, but if this is the case, I have missed the thread. Can somebody help me with this? J Dr James Foadi PhD Membrane Protein Laboratory Diamond Light Source Ltd. Diamond House Harwell Science and Innovation Campus Didcot Oxfordshire OX11 0DE United Kingdom office email: james.fo...@diamond.ac.uk alternative email: j.fo...@imperial.ac.uk
