Re: [chimerax-users] error with open :: 'foreach' has no suffix
Dear Tom and Eric, I used notepad ++ to make sure that the cxc file was not a .txt ( i am on windows) and i am still getting the error ( foreach has no suffix) . i have attached my .cxc script . I am trying to read a set of .mae files and write a log file with RMSD and some distance measurements. I am new to chimera and would benefit a lot from your review of my script and possible fixes for this issue. thank a lot for your time. best regards, amith ________________________________ From: Tom Goddard <goddard@sonic.net> Sent: Tuesday, February 8, 2022 10:36 AM To: PETTERSEN, ERIC <pett@cgl.ucsf.edu> Cc: Rangarajan, Amith <Amith.Rangarajan@ucsf.edu> Subject: Re: [chimerax-users] error with open :: 'foreach' has no suffix Hi Eric, Not quite sure I understand your theory abut Amith's error. In current ChimeraX daily build using non-existent files with open command open something.cxc foreach somethingelse.py > No such file/path: something.cxc ZjQcmQRYFpfptBannerStart This Message Is From an External Sender This message came from outside your organization. ZjQcmQRYFpfptBannerEnd Hi Eric, Not quite sure I understand your theory abut Amith's error. In current ChimeraX daily build using non-existent files with open command open something.cxc foreach somethingelse.py
No such file/path: something.cxc
gives a very sensible error message and does not try to interpret "foreach" as a file name. Tom On Feb 8, 2022, at 9:40 AM, Eric Pettersen via ChimeraX-users <chimerax-users@cgl.ucsf.edu<mailto:chimerax-users@cgl.ucsf.edu>> wrote: Hi Amith, That error message indicates to me that the first file name (script.cxc) isn't being recognized as a ChimeraX command script file. So take a hard look at the command you typed and make sure that the suffix for that file is ".cxc" and not something mistyped like ".cxs" or whatnot. --Eric Eric Pettersen UCSF Computer Graphics Lab On Feb 8, 2022, at 6:25 AM, Rangarajan, Amith via ChimeraX-users <chimerax-users@cgl.ucsf.edu<mailto:chimerax-users@cgl.ucsf.edu>> wrote: This Message Is From an External Sender This message came from outside your organization. Hi, I am trying to run a script and want to use foreach ( open script.cxc foreach *.pdb) to iterate through several pdb files in the working directory. I had no issues with running it earlier, but since last few tries, i am getting an error stating that ""'foreach' has no suffix"" I am not able to figure out how to debug this. I am using the latest build of chimerax. I will highly appreciate your suggestions on fixing this. best amith _______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu<mailto:ChimeraX-users@cgl.ucsf.edu> Manage subscription: https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users _______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu<mailto:ChimeraX-users@cgl.ucsf.edu> Manage subscription: https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users
Hi Amith, I don't care so much about the contents of your script per se — I'd like to see the contents of the log when the error occurs. Do this: run the command that generates the "'foreach' has no suffix" error and then use Help→Report A Bug and submit a bug report. That will include the contents of the log, which is what I need to see. Thanks! --Eric
On Feb 10, 2022, at 4:52 AM, Rangarajan, Amith <Amith.Rangarajan@ucsf.edu> wrote:
This Message Is From an External Sender This message came from outside your organization. Dear Tom and Eric,
I used notepad ++ to make sure that the cxc file was not a .txt ( i am on windows) and i am still getting the error ( foreach has no suffix) . i have attached my .cxc script .
I am trying to read a set of .mae files and write a log file with RMSD and some distance measurements.
I am new to chimera and would benefit a lot from your review of my script and possible fixes for this issue.
thank a lot for your time.
best regards, amith From: Tom Goddard <goddard@sonic.net <mailto:goddard@sonic.net>> Sent: Tuesday, February 8, 2022 10:36 AM To: PETTERSEN, ERIC <pett@cgl.ucsf.edu <mailto:pett@cgl.ucsf.edu>> Cc: Rangarajan, Amith <Amith.Rangarajan@ucsf.edu <mailto:Amith.Rangarajan@ucsf.edu>> Subject: Re: [chimerax-users] error with open :: 'foreach' has no suffix
This Message Is From an External Sender This message came from outside your organization. Hi Eric,
Not quite sure I understand your theory abut Amith's error. In current ChimeraX daily build using non-existent files with open command
open something.cxc foreach somethingelse.py
No such file/path: something.cxc
gives a very sensible error message and does not try to interpret "foreach" as a file name.
Tom
On Feb 8, 2022, at 9:40 AM, Eric Pettersen via ChimeraX-users <chimerax-users@cgl.ucsf.edu <mailto:chimerax-users@cgl.ucsf.edu>> wrote:
Hi Amith, That error message indicates to me that the first file name (script.cxc) isn't being recognized as a ChimeraX command script file. So take a hard look at the command you typed and make sure that the suffix for that file is ".cxc" and not something mistyped like ".cxs" or whatnot.
--Eric
Eric Pettersen UCSF Computer Graphics Lab
On Feb 8, 2022, at 6:25 AM, Rangarajan, Amith via ChimeraX-users <chimerax-users@cgl.ucsf.edu <mailto:chimerax-users@cgl.ucsf.edu>> wrote:
This Message Is From an External Sender This message came from outside your organization. Hi,
I am trying to run a script and want to use foreach ( open script.cxc foreach *.pdb) to iterate through several pdb files in the working directory.
I had no issues with running it earlier, but since last few tries, i am getting an error stating that ""'foreach' has no suffix""
I am not able to figure out how to debug this.
I am using the latest build of chimerax.
I will highly appreciate your suggestions on fixing this.
best amith _______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu <mailto:ChimeraX-users@cgl.ucsf.edu> Manage subscription: https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users <https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users>
ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu <mailto:ChimeraX-users@cgl.ucsf.edu> Manage subscription: https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users <https://plato.cgl.ucsf.edu/mailman/listinfo/chimerax-users> <RMSD-distance-final.cxc>
participants (2)
-
Eric Pettersen -
Rangarajan, Amith