Re: [ccp4bb] CCP4i on MacPro under Leopard

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Air Conditioning System for Optical Hutch
From: Lucas Sanfelici lsanfelici {- at -} LNLS {- dot -} BR
Date: 2008-08-26

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Subject: Problems installing MOSFLM on Leopard
From: Terry Gunderson terry {- dot -} gunderson {- at -} GMAIL {- dot -} COM
Date: 2008-08-26

Subject: Re: CCP4i on MacPro under Leopard
From: William Scott wgscott {- at -} CHEMISTRY {- dot -} UCSC {- dot -} EDU
Date: 2008-08-26

Glad it worked.

I should have written

"sudo /bin/bash"

or

"sudo /bin/zsh"

or

"sudo /bin/tcsh"

followed by sourcing the appropriate startup script.

However, if I run the tcsh command, I get this error:

limit: stacksize: Can't remove limit (Invalid argument)

oddly, this does not happen with a non-root version of tcsh. It is
easier I think just to use /bin/bash or /bin/zsh in this case.

On Aug 25, 2008, at 9:09 AM, Anita Bentley wrote:

> Thanks a lot for this hint: it works! Including REFMAC, which ran to
> completion and used Arp/Warp to add waters successfully.
>
> Anita
> Le 25 août 08 à 16:04, William G. Scott a écrit :
>
>> Under 10.5.X, sudo doesn't inherit the environment. So the best
>> thing to do is start a root process like this:
>>
>> /bin/bash
>>
>> (or /bin/zsh or /bin/tcsh )
>>
>> source /usr/local/ccp4-6.0.2/include/ccp4.setup-bash
>>
>> (or whatever it is for your shell)
>>
>> Then issue ccp4i
>>
>>
>> William G. Scott
>>
>> Contact info:
>> http://chemistry.ucsc.edu/~wgscott/
>>
>>
>> On Aug 25, 2008, at 6:05 AM, Anita Bentley wrote:
>>
>>> My faithful old Mac G5 siezed up and I have to use a brand new
>>> MacBook Pro from now on. It's an Intel machine with Leopard.
>>>
>>> I managed to install CCP4 together with TLK/BLK programmes. After
>>> a long while searching for bltwish routines I discovered that they
>>> are automatically installed in /usr/local/bin and not in /sw/bin
>>> as suggested in the ccp4 setup files (!). With this problem sorted
>>> out, I was able to start ccp4i GUI fine.
>>> I get the message that "I am the first person to run this
>>> version ... and should get the right person to configure the
>>> interface ...". However, when I try to run ccp4i with "sudo" in
>>> order to have the priviledges to configure it, I am unable to run
>>> it:
>>>
>>> "macbookpro-bentley 7% sudo ccp4i
>>> /usr/local/ccp4-6.0.2/bin/ccp4i: line 4: /bltwish: No such file or
>>> directory
>>> /usr/local/ccp4-6.0.2/bin/ccp4i: line 4: exec: /bltwish: cannot
>>> execute: No such file or directory"
>>>
>>> I've modified the -sh and -csh files (I have a one-line login.com
>>> to get me under csh as user) to no avail. What do I have to do to
>>> be able to configure the interface???
>>>
>>> The underlying problem is that I cannot run REFMAC in the present
>>> state of things, I get the following error:
>>> "Error from script
>>> /usr/local/ccp4-6.0.2/share/ccp4i/scripts/refmac5.script: can't
>>> read "cell": no such variable"
>>> which makes me think the configuration of the interface is not
>>> quite right.
>>>
>>> Any help is greatly appreciated!
>>>
>>> Anita
>>>
>>>
>>>
>>>
>>> Anita Lewit-Bentley
>>> LBPA
>>> Ecole Normale Supérieure de Cachan
>>> 61, avenue du Président Wilson
>>> 94235 Cachan cedex
>>> FRANCE
>>>
>>> tel: 33-(0)1-47 40 76 65
>>> fax: 33-(0)1 47 40 76 71
>>> e-mail: anita.bentley@lbpa.ens-cachan.fr
>>>
>

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Air Conditioning System for Optical Hutch
From: Lucas Sanfelici lsanfelici {- at -} LNLS {- dot -} BR
Date: 2008-08-26

Next message:
Subject: Problems installing MOSFLM on Leopard
From: Terry Gunderson terry {- dot -} gunderson {- at -} GMAIL {- dot -} COM
Date: 2008-08-26