I have an AMPL script that involves calling "solve" on a linear program many times. The solver I'm using is MINOS. After every time it solves, it outputs:
MINOS 5.51:
"option abs_boundtol 2.220446049250313e-16;" or "option
rel_boundtol 2.220446049250313e-16;" will change deduced dual values.
Is there a way to suppress this message?
I read this in the MINOS instructions:
For invocations from AMPL's solve command or of the form
minos stub ...
(where stub.nl is from AMPL's -ob or -og output options), you can use
outlev= to control the amount and kind of output:
outlev=0 no chatter on stdout
outlev=1 only report options on stdout
outlev=2 summary file on stdout
outlev=3 log file on stdout, no solution
outlev=4 log file, including solution, on stdout
which might be relevant but I don't understand it.
I have included "option solver_msg 0;" in my script; it turns off the announcement from MINOS that it got such-and-such an optimal value with so many iterations, but it doesn't affect the message I'm asking about here.
You can redirect the remaining solver output to /dev/null (or equivalent for your system) as follows:
solve > /dev/null;
As for the message about abs_boundtol and rel_boundtol, I think you can set them to a small positive value larger than 2.220446049250313e-16 to make the message go away. Note that this will affect the dual values computed for presolved constraints.
See also https://groups.google.com/d/msg/ampl/ERJ8nF_LnNU/75yWK9deBjUJ
for me "option show_boundtol 0;" worked. You can try this. By default it is "option show_boundtol 1;".
You can read about it here (http://ftp.icm.edu.pl/packages/netlib/ampl/changes)
Related
I'm relatively new to using Octave. I'm working on a project that requires me to collect the RGB values of all the pixels in a particular image and compare them to a list of other values. This is a time-consuming process that takes about half a minute to run. As I make edits to my code and test it, I find it annoying that I need to wait for 30 seconds to see if my updates work or not. Is there a way where I can run the code once at first to load the data I need and then set up an artificial starting point so that when I rerun the code (or input something into the command window) it only runs a desired section (the section after the time-consuming part) leaving the untouched data intact?
You may set your variable to save into a global variable,
and then use clear -v instead of clear all.
clear all is a kind of atomic bomb, loved by many users. I have never understood why. Hopefully, it does not close the session: Still some job for quit() ;-)
To illustrate the proposed solution:
>> a = rand(1,3)
a =
0.776777 0.042049 0.221082
>> global a
>> clear -v
>> a
error: 'a' undefined near line 1, column 1
>> global a
>> a
a =
0.776777 0.042049 0.221082
Octave works in an interactive session. If you run your script in a new Octave session each time, you will have to re-compute all your values each time. But you can also start Octave and then run your script at the interactive terminal. At the end of the script, the workspace will contain all the variables your script used. You can type individual statements at the interactive terminal prompt, which use and modify these variables, just like running a script one line at the time.
You can also set breakpoints. You can set a breakpoint at any point in your script, then run your script. The script will run until the breakpoint, then the interactive terminal will become active and you can work with the variables as they are at that point.
If you don't like the interactive stuff, you can also write a script this way:
clear
if 1
% Section 1
% ... do some computations here
save my_data
else
load my_data
end
% Section 2
% ... do some more computations here
When you run the script, Section 1 will be run, and the results saved to file. Now change the 1 to 0, and then run the script again. This time, Section 1 will be skipped, and the previously saved variables will be loaded.
My problem is simple: I'm trying to write a tcl script to use $grofile instead writing every time I need this file name.
So, what I did in TkConsole was:
% set grofile "file.gro"
% mol load gro ${grofile}
and, indeed, I succeeded uploading the file.
In the script I have the same lines, but still have this error:
wrong # args: should be "set varName ?newValue?"
can't read "grofile": no such variable
I tried to solve my problem with
% set grofile [./file.gro]
and I have this error,
invalid command name "./file.gro"
can't read "grofile": no such variable
I tried also with
% set grofile [file ./file.gro r]
and I got the first error, again.
I haven't found any simple way to avoid using the explicit name of the file I want to upload. It seems like you only can use the most trivial, but tedious way:
mol load file.gro
mol addfile file.xtc
and so on and so on...
Can you help me with a brief explanation about why in the TkConsole I can upload the file and use it as a variable while I can not in the tcl script?
Also, if you have where is my mistake, I will appreciate it.
I apologize if it is basic, but I could not find any answer. Thanks.
I add the head of my script:
set grofile "sim.part0001_protein_lipid.gro"
set xtcfile "protein_lipid.xtc"
set intime "0-5ms"
set system "lower"
source view_change_render.tcl
source cg_bonds.tcl
mol load gro $grofile xtc ${system}_${intime}_${xtcfile}
It was solved, thanks for your help.
You may think you've typed the same thing, but you haven't. I'm guessing that your real filename has spaces in it, and that you've not put double-quotes around it. That will confuse set as Tcl's general parser will end up giving set more arguments than it expects. (Tcl's general parser does not know that set only takes one or two arguments, by very long standing policy of the language.)
So you should really do:
set grofile "file.gro"
Don't leave the double quotes out if you have a complicated name.
Also, this won't work:
set grofile [./file.gro]
because […] is used to indicate running something as a command and using the result of that. While ./file.gro is actually a legal command name in Tcl, it's… highly unlikely.
And this won't work:
set grofile [file ./file.gro r]
Because the file command requires a subcommand as a first argument. The word you give is not one of the standard file subcommands, and none of them accept those arguments anyway, which look suitable for open (though that returns a channel handle suitable for use with commands like gets and read).
The TkConsole is actually pretty reasonable as quick-and-dirty terminal emulations go (given that it omits a lot of the complicated cases). The real problem is that you're not being consistently accurate about what you're really typing; that matters hugely in most programming languages, not just Tcl. You need to learn to be really exacting; cut-n-paste when creating a question helps a lot.
I have a problem with path in a tcl file. I tried to use
source " /tmp/mob.tcl "
and this path in bash file :
/opt/ns-allinone-2.35/ns-2.35/indep-utils/cmu-scen-gen/setdest/setdest -v 1 -n $n -p 10 -M 64 -t 100 -x 250 -y 250 >> /tmp/mob.tcl
The terminal give me this output:
..."
(procedure "source" line 8)
invoked from within
"source "/tmp/mob.tcl" "
(file "mobilita_source.tcl" line 125)
How I can do this?
Firstly, this:
source " /tmp/mob.tcl "
is very unlikely to be correct. The spaces around the filename inside the quotes will confuse the source command. (It could be correct, but only if you have a directory in your current directory whose name is a single space. That's really unlikely, unless you're a great deal more evil than I am.)
It really helps a lot if you stop making this error.
Secondly, the error message is both
Incomplete, with just an ellipsis instead of a full error on the first line
Really worrying, with source claimed to be a procedure (second line of that short trace).
It's legal to make a procedure called source, and sometimes the right thing to do, but if you're doing it then you have to be ever so careful to duplicate the semantics of the standard Tcl command or odd things will happen.
Thirdly, you've got a file of what is apparently generated code, and you're hitting a problem in it, and you're not telling us what is on/around line 125 of the file (the error trace is pretty clear on that front) or in the contents of the source procedure (which is non-standard; the standard source is implemented in C) and you're expecting us to guess what's going wrong for you??? Seriously?
Tcl error traces are usually quite clear enough for you to figure out what went wrong and where. If there's an unclear error, and it didn't come from user code (by calling error or return -code error) then let us know; we'll help (or possibly even change Tcl to make things clearer in the future). But right now, there's a complete shortage of information.
Here's an example of what a normal source error looks like:
% source /tmp/foo/bar/boo
couldn't read file "/tmp/foo/bar/boo": no such file or directory
% puts $errorInfo
couldn't read file "/tmp/foo/bar/boo": no such file or directory
while executing
"source /tmp/foo/bar/boo"
If a script generates an error directly, it's encouraged to be as clear as that, but we cannot enforce it. Sometimes you have to be a bit of a detective yourself…
So I have been trying to find an answer for this for a bit and could not find the answer on the internet. I need to check to see if an environment variable exists. I thought I had the right code but it keeps returning false.
if { [info exists ::env(USER)] } {
RAT::LogMsg INFO "Found USER"
} else {
RAT::LogMsg INFO "Nope!"
}
Any ideas?
You might want to check what environment variables are actually set; I don't think that USER is one of the guaranteed ones.
RAT::LogMsg INFO "Got these env-vars: [lsort [array names ::env]]"
If puts stdout works in your environment, you can try doing:
parray ::env
(The parray command is a procedure that pretty-prints an array.)
To get the current username reliably, check out the tcl_platform array's user element. That array is generated internally by Tcl (well, with probes to relevant basic OS APIs) instead of by looking at environment variables, and that particular element is always present back at least as far as Tcl 8.4.
RAT::LogMsg INFO "Username is $::tcl_platform(user)"
I've just noticed that the documentation is wrong: it says that the user element comes from USER and/or LOGNAME environment variables. It doesn't, and doesn't in at least 8.5 and 8.6. (And it's definitely my mistake. I forgot to update the code when I fixed this. Ooops!)
You have the right code, test in tclsh:
% if {[info exists ::env(USER)]} {puts "found $::env(USER)"}
found strobel
%
The problem must be in your environment.
it seems that it is not possible for me to trigger an event in OpenNMS using a threshold...
first the fact (as much detail as i can)
i want to monitor a html file, better, the content.
if a value is not what i expected OpenNMS should call be.
my html file:
Document Count: 5
in /var/lib/opennms/rrd/snmp/NODE are two files named: "documentCount" (.jbr & .meta)
--> because of the http-datacollection-config.xml
in my logfiles is written:
INFO [LegacyScheduler-Thread-2-of-50] RrdUtils: updateRRD: updating RRD file /var/lib/opennms/rrd/snmp/21/documentCount.jrb with values '1385031023:5'"
so the "5" is collected correctly.
now i created a threshold for this case:
<threshold type="high" ds-type="node"
value="4.0" rearm="2.0" trigger="1" triggeredUEI="uei.opennms.org/threshold/highThresholdExceeded"
filterOperator="or" ds-name="documentCount"
/>
in my collectd-configuration.xml is the threshold also enabled:
in my opinion the threshold of 4 is exceeded, because the value is 5. so the highTresholdEvent should be fired. BUT IT DOESNT.
so i'm here to ask if someone had an idea.
regards dawn
Check collectd.log with the following
tail -f collectd.log | grep -i thresholding
Threshold checking was moved to evaluate while the data is being retrieved a while back as opposed to a post process of rrd files.
Even with the log setting at info you should find some clues as to why the threshold rule is not matching any data.