Dear Gerrit,
Changing the alias to include the full path for refmac5 worked. Thank
you very much for your help.
I don't know if it helps you somehow, but I was running it on the same
terminal where I typed "refmac5 -i". Actually, the paths for the CCP4
programs are configured in /etc/bash.bashrc so that they will be visible
everywhere for all users, so I think that was not the issue here.
Thank you again for the quick reply,
Mario Sanches
Gerrit Langer wrote:
> Dear Mario,
>
> it seems that inside the install script the path variable is not set
> and therefore the call to refmac5 fails. We are not sure why this
> happend in your case. The install script was tested with both (t)csh
> and bash and something in your machine setup was not anticipated by
> us. Have you run the install.sh utility in the same terminal/shell, in
> which you later verified your refmac installation by typing 'refmac5
> -i'? Could it be that you need to run some setup util for ccp4
> manually before?
>
> To get you started with ARP/wARP we can send you a taylored install
> script with some diagnostic output to find a fix. In the meanwhile,
> can you try to change the line
> alias runtestrefmac 'refmac5 -i' (line 16 in install_csh.sh)
> to incorporate the absolute path to the refmac5 binary? "Which
> refmac5" should provide you with this.
>
> Regards,
> Gerrit and Victor.
>
> Mario Sanches wrote:
>
>> Dear all,
>>
>> I am trying to install arp/warp and I am stuck with the following error:
>>
>> ------------------------------------------------------------------------------------------------------
>>
>> Checking refmac5 installation - refmac5: Command not found.
>> *** ERROR ***
>> Cannot execute refmac5
>>
>> *** INSTALLATION OF ARP/wARP 7.0.1 FAILED ***
>> ------------------------------------------------------------------------------------------------------
>>
>>
>> CCP4 is installed and refmac5 is running. A few more information:
>>
>> The system is Kubuntu 7.10
>>
>> My shell is bash (tried tcsh as well and got the same error)
>>
>> Typing refmac5 -i returns:
>>
>> ------------------------------------------------------------------------------------------------------
>>
>> CCP4 software suite: library version 6.0
>> CCP4 software suite: patch level 6.0.2
>> Program: refmac5; version 5.2.0019
>> ------------------------------------------------------------------------------------------------------
>>
>>
>> when I type refmac5 I get:
>>
>>
>> ------------------------------------------------------------------------------------------------------
>>
>> ###############################################################
>> ###############################################################
>> ###############################################################
>> ### CCP4 6.0: Refmac_5.2.0019 version 5.2.0019 : 06/09/05##
>> ###############################################################
>> User: manager Run date: 17/ 3/2008 Run time: 09:45:33
>>
>>
>> Please reference: Collaborative Computational Project, Number 4. 1994.
>> "The CCP4 Suite: Programs for Protein Crystallography". Acta Cryst.
>> D50, 760-763.
>> as well as any specific reference in the program write-up.
>>
>> <!--SUMMARY_END--></FONT></B>
>> $TEXT:Reference1: $$ comment $$
>> "Refinement of Macromolecular Structures by the Maximum-Likelihood
>> Method:"
>> G.N. Murshudov, A.A.Vagin and E.J.Dodson,(1997)
>> Acta Crystallogr. D53, 240-255
>> EU Validation contract: BIO2CT-92-0524
>>
>> $$
>> $SUMMARY :Reference1: $$ Refmac: $$
>> :TEXT:Reference1: $$
>> ------------------------------------------------------------------------------------------------------
>>
>>
>>
>> Thank you all in advance for any help.
>>
>>
>
>
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