In the documentation the closed thing I see to an explanation of this is
that ?detach says "Unloading some namespaces has undesirable side
effects"
Can anyone explain why unloading tseries will load zoo? I don't think
this behavior is specific to tseries, it's just an example. I realize
one would not usually unload something that is not loaded, but I would
expect it to do nothing or give an error. I only discovered this when
trying to clean up to debug another problem.
R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet"
and
R Under development (unstable) (2015-01-02 r67308) -- "Unsuffered
Consequences"
...
Type 'q()' to quit R.
> loadedNamespaces()
[1] "base" "datasets" "graphics"
"grDevices" "methods" "stats"
[7] "utils"
> unloadNamespace("tseries") # loads zoo ?
> loadedNamespaces()
[1] "base" "datasets" "graphics"
"grDevices" "grid"
"lattice"
[7] "methods" "quadprog" "stats"
"utils" "zoo"
>
Somewhat related, is there an easy way to get back to a "clean" state
for loaded and attached things, as if R had just been started? I'm
trying to do this in a vignette so it is not easy to stop and restart R.
Paul
Paul, My switchr package (https://github.com/gmbecker/switchr) has the flushSession function which does what you want and seems to work (on my test machine at least). I havent tested it under a recent Rdevel, or with that specific package, however I will soon, as the overarching model of switchr relies on this working. If you do try it before me with that package, please let me know whether it works or not. ~G On Thu, Jan 8, 2015 at 7:45 AM, Paul Gilbert <pgilbert902 at gmail.com> wrote:> In the documentation the closed thing I see to an explanation of this is > that ?detach says "Unloading some namespaces has undesirable side effects" > > Can anyone explain why unloading tseries will load zoo? I don't think this > behavior is specific to tseries, it's just an example. I realize one would > not usually unload something that is not loaded, but I would expect it to > do nothing or give an error. I only discovered this when trying to clean up > to debug another problem. > > R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet" > and > R Under development (unstable) (2015-01-02 r67308) -- "Unsuffered > Consequences" > ... > Type 'q()' to quit R. > > > loadedNamespaces() > [1] "base" "datasets" "graphics" "grDevices" "methods" "stats" > [7] "utils" > > unloadNamespace("tseries") # loads zoo ? > > loadedNamespaces() > [1] "base" "datasets" "graphics" "grDevices" "grid" "lattice" > [7] "methods" "quadprog" "stats" "utils" "zoo" > > > > Somewhat related, is there an easy way to get back to a "clean" state for > loaded and attached things, as if R had just been started? I'm trying to do > this in a vignette so it is not easy to stop and restart R. > > Paul > > ______________________________________________ > R-devel at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel >-- Gabriel Becker, PhD Alumnus Statistics Department University of California, Davis [[alternative HTML version deleted]]
It's probably because the first thing that unloadNamespace does is this:
ns <- asNamespace(ns, base.OK = FALSE)
If you call asNamespace("tseries"), it calls
getNamespace("tseries"), which
has the side effect of loading that package (and its dependencies).
One way to work around this is to check loadedNamespaces() before you try
to unload a package.
-Winston
On Thu, Jan 8, 2015 at 9:45 AM, Paul Gilbert <pgilbert902 at gmail.com>
wrote:
> In the documentation the closed thing I see to an explanation of this is
> that ?detach says "Unloading some namespaces has undesirable side
effects"
>
> Can anyone explain why unloading tseries will load zoo? I don't think
this
> behavior is specific to tseries, it's just an example. I realize one
would
> not usually unload something that is not loaded, but I would expect it to
> do nothing or give an error. I only discovered this when trying to clean up
> to debug another problem.
>
> R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet"
> and
> R Under development (unstable) (2015-01-02 r67308) -- "Unsuffered
> Consequences"
> ...
> Type 'q()' to quit R.
>
> > loadedNamespaces()
> [1] "base" "datasets" "graphics"
"grDevices" "methods" "stats"
> [7] "utils"
> > unloadNamespace("tseries") # loads zoo ?
> > loadedNamespaces()
> [1] "base" "datasets" "graphics"
"grDevices" "grid" "lattice"
> [7] "methods" "quadprog" "stats"
"utils" "zoo"
> >
>
> Somewhat related, is there an easy way to get back to a "clean"
state for
> loaded and attached things, as if R had just been started? I'm trying
to do
> this in a vignette so it is not easy to stop and restart R.
>
> Paul
>
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>
[[alternative HTML version deleted]]
Paul, In the version of R I had trivially available, the flushSession function from switchr seems to perform as expected when tseries is loaded.> library(tseries)library(tseries) ?tseries? version: 0.10-32 ?tseries? is a package for time series analysis and computational finance. See ?library(help="tseries")? for details.> library(switchr)library(switchr)> sessionInfo()sessionInfo() R version 3.1.0 (2014-04-10) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] switchr_0.4.7 tseries_0.10-32 loaded via a namespace (and not attached): [1] BiocInstaller_1.16.1 bitops_1.0-6 grid_3.1.0 [4] lattice_0.20-29 quadprog_1.5-5 RCurl_1.95-4.5 [7] tcltk_3.1.0 tools_3.1.0 zoo_1.7-11> flushSession()flushSession() NULL Warning message: In flushSession() : Unable to unload all namespaces> sessionInfo()sessionInfo() R version 3.1.0 (2014-04-10) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] switchr_0.4.7 loaded via a namespace (and not attached): [1] BiocInstaller_1.16.1 bitops_1.0-6 grid_3.1.0 [4] RCurl_1.95-4.5 tcltk_3.1.0 tools_3.1.0>Ignore the warning in the middle there, it is referring to BiocInstaller. The rest of the packages which remain loaded are base packages (which it doesn't attempt to unload by default, as doing so is dangerous). I'll try to run the same test on the version of R you were using soon, but I don't have it handy atm. ~G On Fri, Jan 9, 2015 at 9:09 AM, Winston Chang <winstonchang1 at gmail.com> wrote:> It's probably because the first thing that unloadNamespace does is this: > ns <- asNamespace(ns, base.OK = FALSE) > > If you call asNamespace("tseries"), it calls getNamespace("tseries"), which > has the side effect of loading that package (and its dependencies). > > One way to work around this is to check loadedNamespaces() before you try > to unload a package. > > -Winston > > On Thu, Jan 8, 2015 at 9:45 AM, Paul Gilbert <pgilbert902 at gmail.com> > wrote: > > > In the documentation the closed thing I see to an explanation of this is > > that ?detach says "Unloading some namespaces has undesirable side > effects" > > > > Can anyone explain why unloading tseries will load zoo? I don't think > this > > behavior is specific to tseries, it's just an example. I realize one > would > > not usually unload something that is not loaded, but I would expect it to > > do nothing or give an error. I only discovered this when trying to clean > up > > to debug another problem. > > > > R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet" > > and > > R Under development (unstable) (2015-01-02 r67308) -- "Unsuffered > > Consequences" > > ... > > Type 'q()' to quit R. > > > > > loadedNamespaces() > > [1] "base" "datasets" "graphics" "grDevices" "methods" "stats" > > [7] "utils" > > > unloadNamespace("tseries") # loads zoo ? > > > loadedNamespaces() > > [1] "base" "datasets" "graphics" "grDevices" "grid" "lattice" > > [7] "methods" "quadprog" "stats" "utils" "zoo" > > > > > > > Somewhat related, is there an easy way to get back to a "clean" state for > > loaded and attached things, as if R had just been started? I'm trying to > do > > this in a vignette so it is not easy to stop and restart R. > > > > Paul > > > > ______________________________________________ > > R-devel at r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/r-devel > > > > [[alternative HTML version deleted]] > > ______________________________________________ > R-devel at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel >-- Gabriel Becker, PhD Alumnus Statistics Department University of California, Davis [[alternative HTML version deleted]]
Thanks Winston. That seems like a workaround that might be usefully included into unloadNamespace. Paul On 15-01-09 12:09 PM, Winston Chang wrote:> It's probably because the first thing that unloadNamespace does is this: > ns <- asNamespace(ns, base.OK = FALSE) > > If you call asNamespace("tseries"), it calls getNamespace("tseries"), > which has the side effect of loading that package (and its dependencies). > > One way to work around this is to check loadedNamespaces() before you > try to unload a package. > > -Winston > > On Thu, Jan 8, 2015 at 9:45 AM, Paul Gilbert <pgilbert902 at gmail.com > <mailto:pgilbert902 at gmail.com>> wrote: > > In the documentation the closed thing I see to an explanation of > this is that ?detach says "Unloading some namespaces has undesirable > side effects" > > Can anyone explain why unloading tseries will load zoo? I don't > think this behavior is specific to tseries, it's just an example. I > realize one would not usually unload something that is not loaded, > but I would expect it to do nothing or give an error. I only > discovered this when trying to clean up to debug another problem. > > R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet" > and > R Under development (unstable) (2015-01-02 r67308) -- "Unsuffered > Consequences" > ... > Type 'q()' to quit R. > > > loadedNamespaces() > [1] "base" "datasets" "graphics" "grDevices" "methods" "stats" > [7] "utils" > > unloadNamespace("tseries") # loads zoo ? > > loadedNamespaces() > [1] "base" "datasets" "graphics" "grDevices" "grid" "lattice" > [7] "methods" "quadprog" "stats" "utils" "zoo" > > > > Somewhat related, is there an easy way to get back to a "clean" > state for loaded and attached things, as if R had just been started? > I'm trying to do this in a vignette so it is not easy to stop and > restart R. > > Paul > > ________________________________________________ > R-devel at r-project.org <mailto:R-devel at r-project.org> mailing list > https://stat.ethz.ch/mailman/__listinfo/r-devel > <https://stat.ethz.ch/mailman/listinfo/r-devel> > >