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Re: [ccp4bb] problem installing arp/warp |
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CCP4bb navigationCCP4bb <-- 2008 <-- March 2008 <-- 17 March 2008Subject: Re: problem installing arp/warp From: Mario Sanches msanches {- at -} LNLS {- dot -} BR Date: 2008-03-17 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. >> >> >> $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. >> >> > > CCP4bb navigationCCP4bb <-- 2008 <-- March 2008 <-- 17 March 2008 |
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