[sage-support] Re: Installing optional R package on sagenb.org
I had a similar failure today, trying to: r.install_packages(adapt) after some fussing, runing ./sage as root, and using the notebook interface I could get through the download phase, but same sorts of failures in just as the gcc kicks in. Seems several of the key R scripts have /home/wstein/... hard wired in to R_HOME_XXX, which obviously will fail. I tried editing the R startup scripts (among others) but couldn't get it to work. BTW, I installed from the latest Debian tarball into a Debian/VMWARE machine just today. So installing R packages is still an issue. - Cronin William Stein wrote: On Fri, Jan 2, 2009 at 6:57 PM, kcrisman kcris...@gmail.com wrote: Dear support, Because I only have OSX and there is this scary warning about it in the documentation for r.install_packages (which incidentally the test for it has no s, but I don't know if that matters), I was trying to load one on the sagenb site. Probably this is a gross violation of bandwidth or something, It will surely fail with a permission denied error at some point. What package would you like to install? but anyway the surprise result under the R interface was install_packages(MASS) Error: could not find function install_packages Try typing r.install_packages(MASS) in a normal Sage input cell. You probably forgot the quotes. Trying this on OS X it definitely fails for me. There is this message: sage: r.install_packages(MASS) ** You are using OS X. Unfortunately, the R optional package system currently doesn't support OS X very well. We are working on this. ** I wonder who the We refers to? :-) I tried the above on sagenb.org (I'm the admin, so I have permissions). It seems to fail as well: s...@sagenb:~$ sage -- | Sage Version 3.2.2, Release Date: 2008-12-18 | | Type notebook() for the GUI, and license() for information.| -- sage: r.install_packages(MASS) 0.00user 0.02system 0:00.03elapsed 82%CPU (0avgtext+0avgdata 0maxresident)k 64inputs+0outputs (1major+209minor)pagefaults 0swaps R version 2.6.1 (2007-11-26) Copyright (C) 2007 The R Foundation for Statistical Computing ISBN 3-900051-07-0 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. Natural language support but running in an English locale R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. options(repos=http://cran.r-project.org/;); install.packages(MASS) trying URL 'http://cran.r-project.org/src/contrib/VR_7.2-45.tar.gz' Content type 'application/x-gzip' length 465054 bytes (454 Kb) opened URL == downloaded 454 Kb WARNING: ignoring environment value of R_HOME /home/sage/sage/local/lib/R/library WARNING: ignoring environment value of R_HOME * Installing *source* package 'MASS' ... ** libs gcc -std=gnu99 -I/home/sage/sage/local/lib/R/include -I/home/sage/sage/local/lib/R/include -I/home/sage/sage/local/inlcude WARNING: ignoring environment value of R_HOME -fpic -I/home/sage/sage/local/include -L/home/sage/sage/local/lib/ -c lqs.c -o lqs.o gcc: WARNING:: No such file or directory gcc: ignoring: No such file or directory gcc: environment: No such file or directory gcc: value: No such file or directory gcc: of: No such file or directory gcc: R_HOME: No such file or directory make: *** [lqs.o] Error 1 ERROR: compilation failed for package 'MASS' ** Removing '/home/sage/sage/local/lib/R/library/MASS' ** Removing '/home/sage/sage/local/lib/R/library/class' ** Removing '/home/sage/sage/local/lib/R/library/nnet' ** Removing '/home/sage/sage/local/lib/R/library/spatial' The downloaded packages are in /tmp/RtmpoUnbs5/downloaded_packages Updating HTML index of packages in '.Library' Warning message: In install.packages(MASS) : installation of package 'VR' had non-zero exit status which was surprising since tab-completion was how I found this function in the first place. I also got this in the Sage interface with r.install_packages. If anyone knows how I might do this, or if it's not good to do, or whether my Mac will actually allow me to install the optional package after all, OR whether Sage actually includes these by default (which doesn't seem to be the case, but I might have typed something wrong), I would greatly appreciate any information you might have. Thanks! - kcrisman -- William Stein Associate Professor of Mathematics
[sage-support] question about solve() function
Hi! Is it possible to get order of root of equation? For example equation: f(x)=(x+1)^2 and it's solution solve(f,x) will be [x == -1], but this is not perfect clear, because x==-1 have second order. This equation actually must have two same roots: [x == -1,x == -1]. --~--~-~--~~~---~--~~ To post to this group, send email to sage-support@googlegroups.com To unsubscribe from this group, send email to sage-support-unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-support URLs: http://www.sagemath.org -~--~~~~--~~--~--~---
[sage-support] Re: question about solve() function
On Fri, Jan 9, 2009 at 3:49 AM, Sand Wraith omegat...@gmail.com wrote: Hi! Is it possible to get order of root of equation? For example equation: f(x)=(x+1)^2 and it's solution solve(f,x) will be [x == -1], but this is not perfect clear, because x==-1 have second order. This equation actually must have two same roots: [x == -1,x == -1]. Use the roots command: sage: f = (x + 1)^2 sage: f.roots() [(-1, 2)] The 2 is the multiplicity. William --~--~-~--~~~---~--~~ To post to this group, send email to sage-support@googlegroups.com To unsubscribe from this group, send email to sage-support-unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-support URLs: http://www.sagemath.org -~--~~~~--~~--~--~---
[sage-support] Re: Installing optional R package on sagenb.org
On Fri, Jan 9, 2009 at 1:19 AM, ztnews cronin.vin...@gmail.com wrote: I had a similar failure today, trying to: r.install_packages(adapt) after some fussing, runing ./sage as root, and using the notebook interface I could get through the download phase, but same sorts of failures in just as the gcc kicks in. Seems several of the key R scripts have /home/wstein/... hard wired in to R_HOME_XXX, which obviously will fail. I tried editing the R startup scripts (among others) but couldn't get it to work. BTW, I installed from the latest Debian tarball into a Debian/VMWARE machine just today. So installing R packages is still an issue. - Cronin I made this trac #4959: http://trac.sagemath.org/sage_trac/ticket/4959 Michael -- I hope there wasn't already a ticket for this in trac -- it's impossible to search for r. I couldn't find anything under install_packages. William Stein wrote: On Fri, Jan 2, 2009 at 6:57 PM, kcrisman kcris...@gmail.com wrote: Dear support, Because I only have OSX and there is this scary warning about it in the documentation for r.install_packages (which incidentally the test for it has no s, but I don't know if that matters), I was trying to load one on the sagenb site. Probably this is a gross violation of bandwidth or something, It will surely fail with a permission denied error at some point. What package would you like to install? but anyway the surprise result under the R interface was install_packages(MASS) Error: could not find function install_packages Try typing r.install_packages(MASS) in a normal Sage input cell. You probably forgot the quotes. Trying this on OS X it definitely fails for me. There is this message: sage: r.install_packages(MASS) ** You are using OS X. Unfortunately, the R optional package system currently doesn't support OS X very well. We are working on this. ** I wonder who the We refers to? :-) I tried the above on sagenb.org (I'm the admin, so I have permissions). It seems to fail as well: s...@sagenb:~$ sage -- | Sage Version 3.2.2, Release Date: 2008-12-18 | | Type notebook() for the GUI, and license() for information.| -- sage: r.install_packages(MASS) 0.00user 0.02system 0:00.03elapsed 82%CPU (0avgtext+0avgdata 0maxresident)k 64inputs+0outputs (1major+209minor)pagefaults 0swaps R version 2.6.1 (2007-11-26) Copyright (C) 2007 The R Foundation for Statistical Computing ISBN 3-900051-07-0 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. Natural language support but running in an English locale R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. options(repos=http://cran.r-project.org/;); install.packages(MASS) trying URL 'http://cran.r-project.org/src/contrib/VR_7.2-45.tar.gz' Content type 'application/x-gzip' length 465054 bytes (454 Kb) opened URL == downloaded 454 Kb WARNING: ignoring environment value of R_HOME /home/sage/sage/local/lib/R/library WARNING: ignoring environment value of R_HOME * Installing *source* package 'MASS' ... ** libs gcc -std=gnu99 -I/home/sage/sage/local/lib/R/include -I/home/sage/sage/local/lib/R/include -I/home/sage/sage/local/inlcude WARNING: ignoring environment value of R_HOME -fpic -I/home/sage/sage/local/include -L/home/sage/sage/local/lib/ -c lqs.c -o lqs.o gcc: WARNING:: No such file or directory gcc: ignoring: No such file or directory gcc: environment: No such file or directory gcc: value: No such file or directory gcc: of: No such file or directory gcc: R_HOME: No such file or directory make: *** [lqs.o] Error 1 ERROR: compilation failed for package 'MASS' ** Removing '/home/sage/sage/local/lib/R/library/MASS' ** Removing '/home/sage/sage/local/lib/R/library/class' ** Removing '/home/sage/sage/local/lib/R/library/nnet' ** Removing '/home/sage/sage/local/lib/R/library/spatial' The downloaded packages are in /tmp/RtmpoUnbs5/downloaded_packages Updating HTML index of packages in '.Library' Warning message: In install.packages(MASS) : installation of package 'VR' had non-zero exit status which was surprising since tab-completion was how I found this function in the first place. I also got this in the Sage interface with r.install_packages. If anyone knows how I might do this, or if it's not good to do, or whether my Mac will actually allow me to install the optional
[sage-support] Re: why doesn`t solve() give a proper answer
On Jan 9, 6:51 am, Slava slava_se...@mail.ru wrote:
I`m trying to solve such simple system of equations: [sqrt(x) == 1, x
== y],
so I type:
x,y = var('x,y');
solve([sqrt(x) == 1, x == y], x, y);
the answer is: []
If I understand correctly, Sage punts to Maxima to solve equations.
Maxima's built-in solver is not too strong. There is an add-on package
which can solve equations which contain radicals. Dunno how to call
it from Sage, but in Maxima itself it's like this:
load (topoly_solver);
to_poly_solve ([sqrt(x) = 1, x = y], [x, y]);
= [[x = 1, y = 1]]
Maybe at some point in the not-too-distant future, the built-in
solver would call to_poly_solve automatically
HTH
Robert Dodier
--~--~-~--~~~---~--~~
To post to this group, send email to sage-support@googlegroups.com
To unsubscribe from this group, send email to
sage-support-unsubscr...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/sage-support
URLs: http://www.sagemath.org
-~--~~~~--~~--~--~---
[sage-support] Re: why doesn`t solve() give a proper answer
On Fri, Jan 9, 2009 at 9:01 AM, Robert Dodier robert.dod...@gmail.com wrote:
On Jan 9, 6:51 am, Slava slava_se...@mail.ru wrote:
I`m trying to solve such simple system of equations: [sqrt(x) == 1, x
== y],
so I type:
x,y = var('x,y');
solve([sqrt(x) == 1, x == y], x, y);
the answer is: []
If I understand correctly, Sage punts to Maxima to solve equations.
Maxima's built-in solver is not too strong. There is an add-on package
which can solve equations which contain radicals. Dunno how to call
it from Sage, but in Maxima itself it's like this:
load (topoly_solver);
to_poly_solve ([sqrt(x) = 1, x = y], [x, y]);
= [[x = 1, y = 1]]
Maybe at some point in the not-too-distant future, the built-in
solver would call to_poly_solve automatically
That would be nice. Here's doing the above in sage:
sage: x,y=var('x,y')
sage: v = [sqrt(x)==1, x==y]
sage: w = maxima(v)
sage: maxima.load('topoly_solver')
sage: w.to_poly_solve([x,y])
[[x=1,y=1]]
There's currently no simple code in sage to turn the output of
to_poly_solve into native sage objects.
William
--~--~-~--~~~---~--~~
To post to this group, send email to sage-support@googlegroups.com
To unsubscribe from this group, send email to
sage-support-unsubscr...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/sage-support
URLs: http://www.sagemath.org
-~--~~~~--~~--~--~---
[sage-support] Re: why doesn`t solve() give a proper answer
On Fri, Jan 9, 2009 at 9:05 AM, William Stein wst...@gmail.com wrote:
On Fri, Jan 9, 2009 at 9:01 AM, Robert Dodier robert.dod...@gmail.com wrote:
On Jan 9, 6:51 am, Slava slava_se...@mail.ru wrote:
I`m trying to solve such simple system of equations: [sqrt(x) == 1, x
== y],
so I type:
x,y = var('x,y');
solve([sqrt(x) == 1, x == y], x, y);
the answer is: []
If I understand correctly, Sage punts to Maxima to solve equations.
Maxima's built-in solver is not too strong. There is an add-on package
which can solve equations which contain radicals. Dunno how to call
it from Sage, but in Maxima itself it's like this:
load (topoly_solver);
to_poly_solve ([sqrt(x) = 1, x = y], [x, y]);
= [[x = 1, y = 1]]
Maybe at some point in the not-too-distant future, the built-in
solver would call to_poly_solve automatically
That would be nice. Here's doing the above in sage:
sage: x,y=var('x,y')
sage: v = [sqrt(x)==1, x==y]
sage: w = maxima(v)
sage: maxima.load('topoly_solver')
sage: w.to_poly_solve([x,y])
[[x=1,y=1]]
There's currently no simple code in sage to turn the output of
to_poly_solve into native sage objects.
I should correct myself and say it doesn't have any trivial to use
function to do that. Of course we wrote code to do that when
implementing our solve command (which does work as you suggest above).
William
--~--~-~--~~~---~--~~
To post to this group, send email to sage-support@googlegroups.com
To unsubscribe from this group, send email to
sage-support-unsubscr...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/sage-support
URLs: http://www.sagemath.org
-~--~~~~--~~--~--~---
[sage-support] Problem Running with nohup on OSX.5
I'm having difficulty running Sage in the background on a Mac with OSX. 5 and getting the output saved in a file. I tried a few permutations with different results so I expect I'm making a silly error. Here's what I've seen. Since the program runs fine in some of the scenarios, I don't think the program (which I call commands.sage) is the problem (I've made it simpler and simpler without any change in the results). Any help would be appreciated. Thanks, Tom 0. If I run Sage (from the command line) and type load commands.sage then the program runs fine. 1. If I run nohup ./sage commands.sage results.txt the file results.txt will just contain the initial startup messages from Sage, but nothing more. 2. If I run ./sage commands.sage results.txt all the output is correctly written to results.txt. The only problem is that I can't close the terminal session and let Sage run in the background. 3. If I run ./sage commands.sage I get the initial startup message, but nothing else written to screen or any file. 4. If I create a file intro.sage with the one line load commands.sage and then run ./sage intro.sage then the program runs and the output is sent to the screen. 5. If I run nohup ./sage intro.sage results.txt the file results.txt will just contain the initial startup messages from Sage, but nothing more. --~--~-~--~~~---~--~~ To post to this group, send email to sage-support@googlegroups.com To unsubscribe from this group, send email to sage-support-unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-support URLs: http://www.sagemath.org -~--~~~~--~~--~--~---
[sage-support] Re: Problem Running with nohup on OSX.5
On Jan 9, 1:53 pm, Tom haged...@tcnj.edu wrote: I'm having difficulty running Sage in the background on a Mac with OSX. 5 and getting the output saved in a file. I tried a few permutations with different results so I expect I'm making a silly error. Here's what I've seen. Since the program runs fine in some of the scenarios, I don't think the program (which I call commands.sage) is the problem (I've made it simpler and simpler without any change in the results). Any help would be appreciated. Thanks, Tom 0. If I run Sage (from the command line) and type load commands.sage then the program runs fine. 1. If I run nohup ./sage commands.sage results.txt the file results.txt will just contain the initial startup messages from Sage, but nothing more. 2. If I run ./sage commands.sage results.txt all the output is correctly written to results.txt. The only problem is that I can't close the terminal session and let Sage run in the background. 3. If I run ./sage commands.sage I get the initial startup message, but nothing else written to screen or any file. 4. If I create a file intro.sage with the one line load commands.sage and then run ./sage intro.sage then the program runs and the output is sent to the screen. 5. If I run nohup ./sage intro.sage results.txt the file results.txt will just contain the initial startup messages from Sage, but nothing more. It seems to be working for me with: nohup ./sage mytest.sage /dev/null results.txt So I gave the command file as a command-line argument, instead of on standard input; and I made sure to redirect standard input from /dev/ null. I also had to avoid the name commands.sage, because that conflicts with a module Commands that's part of Sage (via IPython). Carl --~--~-~--~~~---~--~~ To post to this group, send email to sage-support@googlegroups.com To unsubscribe from this group, send email to sage-support-unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-support URLs: http://www.sagemath.org -~--~~~~--~~--~--~---
[sage-support] the set containing the empty set
Is this a bug?
sage: Set([])
{}
sage: Set(Set([]))
{}
sage: Set([]) == Set(Set([]))
True
In general, are Sage Sets supposed to behave like mathematical sets?
--~--~-~--~~~---~--~~
To post to this group, send email to sage-support@googlegroups.com
To unsubscribe from this group, send email to
sage-support-unsubscr...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/sage-support
URLs: http://www.sagemath.org
-~--~~~~--~~--~--~---
[sage-support] Re: the set containing the empty set
On Fri, Jan 9, 2009 at 3:36 PM, John H Palmieri jhpalmier...@gmail.com wrote:
Is this a bug?
sage: Set([])
{}
sage: Set(Set([]))
{}
sage: Set([]) == Set(Set([]))
True
This is because Set takes a list (iterable) for all the of the
elements of the set. So, if you want to construct the set containing
the empty set, you'd do the following:
sage: e = Set([])
sage: ee = Set([e])
sage: e
{}
sage: ee
{{}}
sage: e == ee
False
--Mike
--~--~-~--~~~---~--~~
To post to this group, send email to sage-support@googlegroups.com
To unsubscribe from this group, send email to
sage-support-unsubscr...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/sage-support
URLs: http://www.sagemath.org
-~--~~~~--~~--~--~---
[sage-support] Re: the set containing the empty set
On Jan 9, 3:40 pm, William Stein wst...@gmail.com wrote:
On Fri, Jan 9, 2009 at 3:38 PM, Mike Hansen mhan...@gmail.com wrote:
On Fri, Jan 9, 2009 at 3:36 PM, John H Palmieri jhpalmier...@gmail.com
wrote:
Is this a bug?
sage: Set([])
{}
sage: Set(Set([]))
{}
sage: Set([]) == Set(Set([]))
True
This is because Set takes a list (iterable) for all the of the
elements of the set. So, if you want to construct the set containing
the empty set, you'd do the following:
sage: e = Set([])
sage: ee = Set([e])
sage: e
{}
sage: ee
{{}}
sage: e == ee
False
Yep. Think coercion -- Set(foo) makes foo into a set.
It doesn't make the set containing foo.
Oh, I should have figured that out.
Here's another question: what is the most efficient way of testing
whether one Set is a subset of another? I can do
S in list(T.subsets())
-- and it's a bit frustrating that I can't do S in T.subsets() -- and
I can also manipulate intersections, unions, differences, etc. I can
also convert to python sets and use =. Is there a preferred way?
John
--~--~-~--~~~---~--~~
To post to this group, send email to sage-support@googlegroups.com
To unsubscribe from this group, send email to
sage-support-unsubscr...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/sage-support
URLs: http://www.sagemath.org
-~--~~~~--~~--~--~---
[sage-support] Re: the set containing the empty set
On Fri, Jan 9, 2009 at 6:42 PM, John H Palmieri jhpalmier...@gmail.com wrote:
On Jan 9, 3:40 pm, William Stein wst...@gmail.com wrote:
On Fri, Jan 9, 2009 at 3:38 PM, Mike Hansen mhan...@gmail.com wrote:
On Fri, Jan 9, 2009 at 3:36 PM, John H Palmieri jhpalmier...@gmail.com
wrote:
Is this a bug?
sage: Set([])
{}
sage: Set(Set([]))
{}
sage: Set([]) == Set(Set([]))
True
This is because Set takes a list (iterable) for all the of the
elements of the set. So, if you want to construct the set containing
the empty set, you'd do the following:
sage: e = Set([])
sage: ee = Set([e])
sage: e
{}
sage: ee
{{}}
sage: e == ee
False
Yep. Think coercion -- Set(foo) makes foo into a set.
It doesn't make the set containing foo.
Oh, I should have figured that out.
Here's another question: what is the most efficient way of testing
whether one Set is a subset of another? I can do
S in list(T.subsets())
-- and it's a bit frustrating that I can't do S in T.subsets() -- and
I can also manipulate intersections, unions, differences, etc. I can
also convert to python sets and use =. Is there a preferred way?
There should be an is_subset method, but mysteriously there isn't. Implement
it and send a patch.
William
--~--~-~--~~~---~--~~
To post to this group, send email to sage-support@googlegroups.com
To unsubscribe from this group, send email to
sage-support-unsubscr...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/sage-support
URLs: http://www.sagemath.org
-~--~~~~--~~--~--~---
