Dear Charles and Kevin, If I install CCP4 myself on Windows, refmac works fine from the CCP4 console. This was with CCP4 installed in the default C: location. I did not try from within Coot, however ...
... when trying to run refmac from Coot on a couple of OS X machines nothing happens, no error but no refinement and thus no new coordinates. Others in our lab have seen similar. Stuart On Thu, 14 Feb 2019 at 11:32, Kevin Cowtan < 00002ba34e97fcaf-dmarc-requ...@jiscmail.ac.uk> wrote: > There seem to be a couple of issues, but I'm working to narrow them down. > These may be in part due to ways our computing people have messed with the > bat files to avoid CCP4 clashing with other software (notably OLEX). > > The refmac from console problem I haven't completely isolated, but it may > be that refmac is manipulating file paths assuming slash rather than > backslash somewhere. I can patch this by setting CLIBD_MON to something > ending in a slash (not sure if backslash works or not). I'll experiment > further. > > The second problem is running refmac from within WinCoot. This may be a > local foulup, but I think Stuart had a similar problem in his test machine. > Again, more work needed. > > On Thu, 14 Feb 2019 at 10:03, Charles Ballard - UKRI STFC < > charles.ball...@stfc.ac.uk> wrote: > >> Hi Kevin >> >> just checked and refmac runs happy for me from the CCP4Console. >> Differences are that mine is in the default location, and that machine has >> not had an earlier version of ccp4 installed. >> >> Can you check "set" to see what is set in the environment. >> >> Charles >> >> On 13 Feb 2019, at 11:29, Kevin Cowtan wrote: >> >> Hi! Can anyone run refmac from the WINDOWS command prompt? >> >> I've been experimenting with various combinations of environment >> variables, but I always get an error. The one instance of this error on >> google is an unanswered CCP4BB question. >> >> Dictionary path has not been defined >> Check the environment variable CLIBD_MON >> Current value of CLIBD_MON is C:\Apps\CCP4-7\7.0\lib\data\monomers >> It should be set to wherever_dict/dic/ >> ===> Error: Wrong path for the dictionary files >> <B><FONT COLOR="#FF0000"><!--SUMMARY_BEGIN--> >> Refmac: Wrong path for the dictionary files >> Refmac: Wrong path for the dictionary files >> >> The directory C:\Apps\CCP4-7\7.0\lib\data\monomers contains the following: >> >> Directory of C:\Apps\CCP4-7\7.0\lib\data\monomers >> >> 12/02/2019 15:42 <DIR> . >> 12/02/2019 15:42 <DIR> .. >> 12/02/2019 15:38 <DIR> 0 >> 12/02/2019 15:39 <DIR> 1 >> 12/02/2019 15:39 <DIR> 2 >> 12/02/2019 15:39 <DIR> 3 >> 12/02/2019 15:39 <DIR> 4 >> 12/02/2019 15:39 <DIR> 5 >> 12/02/2019 15:39 <DIR> 6 >> 12/02/2019 15:39 <DIR> 7 >> 12/02/2019 15:40 <DIR> 8 >> 12/02/2019 15:40 <DIR> 9 >> 12/02/2019 15:40 <DIR> a >> 12/02/2019 15:40 <DIR> b >> 12/02/2019 15:40 <DIR> c >> 28/11/2016 21:43 7,640 COPYING >> 12/02/2019 15:40 <DIR> d >> 28/11/2016 21:43 3,553 dnarna_basepairs.txt >> 28/11/2016 21:43 3,553 dnarna_basepairs_2.txt >> 28/11/2016 21:43 5,248 dnarna_params.txt >> 12/02/2019 15:40 <DIR> e >> 27/04/2018 10:59 105,193 ener_lib.cif >> 28/11/2016 23:06 105,136 ener_one_lib.cif >> 12/02/2019 15:40 <DIR> f >> 12/02/2019 15:40 <DIR> g >> 12/02/2019 15:41 <DIR> h >> 12/02/2019 15:41 <DIR> i >> 12/02/2019 15:41 <DIR> j >> 12/02/2019 15:41 <DIR> k >> 12/02/2019 15:41 <DIR> l >> 12/02/2019 15:41 <DIR> list >> 12/02/2019 15:41 <DIR> m >> 28/11/2016 21:43 1,372,146 mon_lib_ind.cif >> 28/11/2016 21:43 6,490,087 mon_lib_ind2.cif >> 28/11/2016 23:06 120 mon_lib_one_ind.cif >> 28/11/2016 23:06 396 mon_lib_one_ind2.cif >> 12/02/2019 15:41 <DIR> n >> 31/08/2018 15:52 35,312 new_entries.txt >> 31/08/2018 15:52 23,685 not_replaced_entries.txt >> 12/02/2019 15:41 <DIR> o >> 12/02/2019 15:41 <DIR> p >> 28/11/2016 21:43 2,490,954 pdb_alt_names.txt >> 28/11/2016 21:43 7,794 pdb_v2to3.py >> 12/02/2019 15:41 <DIR> q >> 12/02/2019 15:41 <DIR> r >> 31/08/2018 15:52 29,731 replaced_entries.txt >> 31/08/2018 15:52 754 revert_list.txt >> 12/02/2019 15:41 <DIR> s >> 12/02/2019 15:42 <DIR> t >> 28/11/2016 21:43 557 template_link.pdb >> 12/02/2019 15:42 <DIR> u >> 12/02/2019 15:42 <DIR> v >> 12/02/2019 15:42 <DIR> w >> 31/08/2018 15:52 24 windows_reserved_words.txt >> 12/02/2019 15:42 <DIR> x >> 12/02/2019 15:42 <DIR> y >> 12/02/2019 15:42 <DIR> z >> -- >> Professor Kevin Cowtan >> York Structural Biology Laboratory / Department of Chemistry >> University of York, Heslington, York, YO10 5DD, UK >> https://www.york.ac.uk/chemistry/staff/academic/a-c/kcowtan/ >> >> EMAIL DISCLAIMER: http://www.york.ac.uk/docs/disclaimer/email.htm >> >> ________________________________ >> >> To unsubscribe from the CCP4BB list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1 >> >> > > -- > Professor Kevin Cowtan > York Structural Biology Laboratory / Department of Chemistry > University of York, Heslington, York, YO10 5DD, UK > https://www.york.ac.uk/chemistry/staff/academic/a-c/kcowtan/ > > EMAIL DISCLAIMER: http://www.york.ac.uk/docs/disclaimer/email.htm > > ------------------------------ > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1 > ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1
