-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Dear all, Sorry if this kind of problems have been posted before, I tried unsuccessfully to find a relevant FAQ. I'm new to Phenix, so I thought it would be a good idea to run the GUI demo first. I installed, set up the programs and copied the data in a directory and did as instructed in the demonstration sequence page. I find two problems: 1. When I call the GUI I don't see the Tasks tab (well, perhaps not a problem, just a misunderstanding) 2. After I load the AutoSol wizard and press "Continue" the wizard doesn't turn to green. Instead, it remains blue and get this message in the console: (...) SUMMARY Input files dataset #1 peak.sca Creating new Data Storage /home/miguel/tests/phenix_demo/PDS/AutoSol.1 Traceback (most recent call last): File "/usr/local/phenix-1.24.1b/phenix/phenix/pds_server/ProcessMaster.py", line 269, in ? run() File "/usr/local/phenix-1.24.1b/phenix/phenix/pds_server/ProcessMaster.py", line 193, in run tasklist = strategyDataStorage.getObject(ProcessKey) File "/usr/local/phenix-1.24.1b/phenix/phenix/server/PDSClient.py", line 146, in getObject return self.loader(pickle_string) File "/usr/local/phenix-1.24.1b/phenix/phenix/server/PDSClient.py", line 27, in loader self.loader(pickle_string) File "/usr/local/phenix-1.24.1b/phenix/phenix/server/PDSClient.py", line 17, in loader return cPickle.loads(pickle_string) ValueError: could not convert string to float Any ideas of what may be wrong? Cheers, Miguel - -- Miguel Ortiz Lombardía Centro de Investigaciones Oncológicas C/ Melchor Fernández Almagro, 3 28029 Madrid, Spain Tel. +34 912 246 900 Fax. +34 912 246 976 email: [email protected] www: http://www.ysbl.york.ac.uk/~mol/ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Je suis de la mauvaise herbe, Braves gens, braves gens, Je pousse en liberté Dans les jardins mal fréquentés! Georges Brassens -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.1 (GNU/Linux) iD8DBQFEzgoeF6oOrDvhbQIRAn6SAJ4zmtiWyYJhmB7hdJeEGUp3kr0MtACfYffg ZvyFTX9ExvysvTOav35k0pg= =nS7A -----END PGP SIGNATURE-----
Miguel Could you tell us the operating system you are running?
I find two problems:
1. When I call the GUI I don't see the Tasks tab (well, perhaps not a problem, just a misunderstanding)
If you want the tasks menu you need to set the preferences in the pull down menus. Nigel -- Nigel W. Moriarty Building 64R0246B, Physical Biosciences Division Lawrence Berkeley National Laboratory Berkeley, CA 94720-8235 Phone : 510-486-5709 Fax : 510-486-5909 Email : [email protected] Web : CCI.LBL.gov
-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Hi Nigel, Thank you for your e-mail! As I told Peter Zwart, I'm running phenix on a PC under Ubuntu 5.10. The processor is an AMD64, but the OS is 32 bits. Thank you in advance for your help. Cheers, Miguel Nigel W. Moriarty wrote:
Miguel
Could you tell us the operating system you are running?
I find two problems:
1. When I call the GUI I don't see the Tasks tab (well, perhaps not a problem, just a misunderstanding)
If you want the tasks menu you need to set the preferences in the pull down menus.
Nigel
- -- Miguel Ortiz Lombardía Centro de Investigaciones Oncológicas C/ Melchor Fernández Almagro, 3 28029 Madrid, Spain Tel. +34 912 246 900 Fax. +34 912 246 976 email: [email protected] www: http://www.ysbl.york.ac.uk/~mol/ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Je suis de la mauvaise herbe, Braves gens, braves gens, Je pousse en liberté Dans les jardins mal fréquentés! Georges Brassens -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.1 (GNU/Linux) iD8DBQFEzikGF6oOrDvhbQIRAtS3AJ9i9Zq2i/R8YB6heT4uk1bwAyMJcACfbKX9 ZW0adZTr08COEvvPuOFTK88= =Re6Y -----END PGP SIGNATURE-----
Miguel Thank you for forwarding your solution. I have included it below so it can be sent to all board users. It will also go into the FAQ. Nigel Nigel, I think I found the answer. I put your file as a replacement of the original one, but got the same result. However, something told me that this could be a locale problem. My locale is Spanish and this causes some problems to programs such as ARP/wARP and Coot. The reason is that we use commas ',' to separate decimals from the integer part and dots '.' to separate powers multiple of 3; that is, the contrary of the English way. So I did: export LC_ALL=C phenix & And now it works (I have moved already to the third out of four screens in the demo) So, I would add the LC_ALL directive in my setup for phenix. Perhaps a FAQ with this would be a good idea for people in Spain, France and Germany ;-) I will let you know if there are any other issues. Thank you very much for your help! Cheers, Miguel -- Nigel W. Moriarty Building 64R0246B, Physical Biosciences Division Lawrence Berkeley National Laboratory Berkeley, CA 94720-8235 Phone : 510-486-5709 Fax : 510-486-5909 Email : [email protected] Web : CCI.LBL.gov
-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Nigel, Thanks to you. It was the "could not convert string to float" that eventually woke me up. I can now confirm that the whole demo worked fine to the end. I like a lot the organisation in the Phenix GUI. Best regards, Miguel Nigel W. Moriarty wrote:
Miguel
Thank you for forwarding your solution. I have included it below so it can be sent to all board users. It will also go into the FAQ.
Nigel
Nigel,
I think I found the answer. I put your file as a replacement of the original one, but got the same result. However, something told me that this could be a locale problem. My locale is Spanish and this causes some problems to programs such as ARP/wARP and Coot. The reason is that we use commas ',' to separate decimals from the integer part and dots '.' to separate powers multiple of 3; that is, the contrary of the English way. So I did:
export LC_ALL=C phenix &
And now it works (I have moved already to the third out of four screens in the demo)
So, I would add the LC_ALL directive in my setup for phenix. Perhaps a FAQ with this would be a good idea for people in Spain, France and Germany ;-)
I will let you know if there are any other issues.
Thank you very much for your help!
Cheers,
Miguel
- -- Miguel Ortiz Lombardía Centro de Investigaciones Oncológicas C/ Melchor Fernández Almagro, 3 28029 Madrid, Spain Tel. +34 912 246 900 Fax. +34 912 246 976 email: [email protected] www: http://www.ysbl.york.ac.uk/~mol/ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Je suis de la mauvaise herbe, Braves gens, braves gens, Je pousse en liberté Dans les jardins mal fréquentés! Georges Brassens -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.1 (GNU/Linux) iD8DBQFEzvMgF6oOrDvhbQIRAm7vAKCVXZ0LhyHBshefRrZoExnzW592lwCghfMO MD634IIv/XqGla6aIqt/faM= =p9Oo -----END PGP SIGNATURE-----
participants (2)
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Miguel Ortiz Lombardia -
Nigel W. Moriarty