Re: [R-pkg-devel] Checking package dependencies before loading namespace

[Tiago Olivoto]

Thanks to all for the suggestions!
Best,
Tiago

Em sáb., 4 de set. de 2021 às 23:45, Martin Morgan 
escreveu:

> Actually, I think the right thing to do is to tell the user what to do
> ("To use this feature, install EBImage following the directions at
> https://bioconductor.org/packages/EBImage') instead of doing it for them.
>
> Martin
>
> From: Tiago Olivoto 
> Date: Friday, September 3, 2021 at 2:14 PM
> To: Martin Morgan 
> Cc: Uwe Ligges , R Package Devel <
> r-package-devel@r-project.org>
> Subject: Re: [R-pkg-devel] Checking package dependencies before loading
> namespace
> Thanks for your response Martin,
> I'm definitely thinking to use BiocManager::install("EBImage") since it is
> the official suggestion of the Bioconductor community. Anyway, I've been
> learning a lot from this discussion. Thanks all!!
> Best,
> Tiago
>
> Em sex., 3 de set. de 2021 às 12:58, Martin Morgan  mtmorgan.b...@gmail.com> escreveu:
> The specific repository you've chosen is not what you want to do. This
> will always install EBImage from Bioconductor version 3.13, but
> Bioconductor version 3.13 is only relevant for R-4.1 (see
> https://bioconductor.org/about/release-announcements/)
>
> Personally, I would encourage you to follow the Bioconductor community
> best practice of BiocManager::install("EBImage"). In that way you will get
> the version of EBImage that has been tested with other Bioconductor
> packages in the same release, and on the version of R in use by your user.
>
> If you were to use a specific repository, it should the one that is as
> good as base R can do (this can be different from the version that
> BiocManager would choose because R's release cycle is different from
> Bioconductor's). I think this is most easily accomplished by
> utils::chooseBioCmirror(), and then selecting the 0-Bioconductor
> repository. That's a lot to tell your users... Maybe others in the R
> community have a better way (the key information is in
> tools:::.BioC_version_associated_with_R_version(), but that is not an
> exported function so not recommended for CRAN packages...)
>
> Martin Morgan
>
> On 9/1/21, 8:13 AM, "R-package-devel on behalf of Tiago Olivoto"  r-package-devel-boun...@r-project.org on behalf of mailto:
> tiagooliv...@gmail.com> wrote:
>
> Thank you, Duncan and Uwe for the suggestions.
>  I followed your instructions and created a function to check for
> EBImage
> that is only called in an interactive section and, if necessary, ask
> the
> user to install the package with install.packages("EBImage", repos="
> https://bioconductor.org/packages/3.13/bioc;)
>
> Best,
> Tiago
>
> Em qua., 1 de set. de 2021 às 03:53, Uwe Ligges <
> mailto:lig...@statistik.tu-dortmund.de> escreveu:
>
> > Two more comments.
> >
> > 1. Note that your code only works in interactice mode, not when
> checking
> > your package as it waits infinitely for the user's choice.
> >
> > 2. I do not see an advantage of installing BiocManager if EBImage is
> > needed, the essential part is simply to select BioC as a repository
> to
> > install packages from.
> >
> > Best,
> > Uwe Ligges
> >
> >
> > On 31.08.2021 23:33, Duncan Murdoch wrote:
> > > People shouldn't be able to install your package unless the "hard"
> > > dependencies are available.
> > >
> > > If EBImage isn't essential to your package, you should make it a
> "soft"
> > > dependency by listing it in Suggests and checking for it every
> time you
> > > use it.
> > >
> > > Duncan Murdoch
> > >
> > > On 31/08/2021 3:20 p.m., Tiago Olivoto wrote:
> > >> Dear all,
> > >> I have a package called pliman
> > >> <https://CRAN.R-project.org/package=pliman>
> > >> which depends on the Bioconductor package EBImage.
> > >>
> > >> When running install.packages("pliman") I get the following
> warning
> > >>
> > >> Warning in install.packages :  dependency ‘EBImage’ is not
> available
> > >>
> > >> and thus when loading the package with library(pliman), the
> following
> > >> error
> > >> occurs
> > >>
> > >> Erro: package or namespace load failed for ‘pliman’ in
> loadNamespace(i,
> > >> c(lib.loc, .libPaths()), versionCheck = 

Re: [R-pkg-devel] Checking package dependencies before loading namespace

[Martin Morgan]

Actually, I think the right thing to do is to tell the user what to do ("To use 
this feature, install EBImage following the directions at 
https://bioconductor.org/packages/EBImage') instead of doing it for them.

Martin

From: Tiago Olivoto 
Date: Friday, September 3, 2021 at 2:14 PM
To: Martin Morgan 
Cc: Uwe Ligges , R Package Devel 

Subject: Re: [R-pkg-devel] Checking package dependencies before loading 
namespace
Thanks for your response Martin,
I'm definitely thinking to use BiocManager::install("EBImage") since it is the 
official suggestion of the Bioconductor community. Anyway, I've been learning a 
lot from this discussion. Thanks all!!
Best,
Tiago

Em sex., 3 de set. de 2021 às 12:58, Martin Morgan 
<mailto:mtmorgan.b...@gmail.com> escreveu:
The specific repository you've chosen is not what you want to do. This will 
always install EBImage from Bioconductor version 3.13, but Bioconductor version 
3.13 is only relevant for R-4.1 (see 
https://bioconductor.org/about/release-announcements/)

Personally, I would encourage you to follow the Bioconductor community best 
practice of BiocManager::install("EBImage"). In that way you will get the 
version of EBImage that has been tested with other Bioconductor packages in the 
same release, and on the version of R in use by your user.

If you were to use a specific repository, it should the one that is as good as 
base R can do (this can be different from the version that BiocManager would 
choose because R's release cycle is different from Bioconductor's). I think 
this is most easily accomplished by utils::chooseBioCmirror(), and then 
selecting the 0-Bioconductor repository. That's a lot to tell your users... 
Maybe others in the R community have a better way (the key information is in 
tools:::.BioC_version_associated_with_R_version(), but that is not an exported 
function so not recommended for CRAN packages...)

Martin Morgan

On 9/1/21, 8:13 AM, "R-package-devel on behalf of Tiago Olivoto" 
<mailto:r-package-devel-boun...@r-project.org on behalf of 
mailto:tiagooliv...@gmail.com> wrote:

    Thank you, Duncan and Uwe for the suggestions.
     I followed your instructions and created a function to check for EBImage
    that is only called in an interactive section and, if necessary, ask the
    user to install the package with install.packages("EBImage", repos="
    https://bioconductor.org/packages/3.13/bioc;)

    Best,
    Tiago

    Em qua., 1 de set. de 2021 às 03:53, Uwe Ligges <
    mailto:lig...@statistik.tu-dortmund.de> escreveu:

    > Two more comments.
    >
    > 1. Note that your code only works in interactice mode, not when checking
    > your package as it waits infinitely for the user's choice.
    >
    > 2. I do not see an advantage of installing BiocManager if EBImage is
    > needed, the essential part is simply to select BioC as a repository to
    > install packages from.
    >
    > Best,
    > Uwe Ligges
    >
    >
    > On 31.08.2021 23:33, Duncan Murdoch wrote:
    > > People shouldn't be able to install your package unless the "hard"
    > > dependencies are available.
    > >
    > > If EBImage isn't essential to your package, you should make it a "soft"
    > > dependency by listing it in Suggests and checking for it every time you
    > > use it.
    > >
    > > Duncan Murdoch
    > >
    > > On 31/08/2021 3:20 p.m., Tiago Olivoto wrote:
    > >> Dear all,
    > >> I have a package called pliman
    > >> <https://CRAN.R-project.org/package=pliman>
    > >> which depends on the Bioconductor package EBImage.
    > >>
    > >> When running install.packages("pliman") I get the following warning
    > >>
    > >> Warning in install.packages :  dependency ‘EBImage’ is not available
    > >>
    > >> and thus when loading the package with library(pliman), the following
    > >> error
    > >> occurs
    > >>
    > >> Erro: package or namespace load failed for ‘pliman’ in loadNamespace(i,
    > >> c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
    > >>   there is no package called ‘EBImage’
    > >>
    > >> I created a check function to check if EBImage is available and if
    > >> not, ask
    > >> users if they want to install it
    > >>
    > >> ---
    > >> check_ebi <- function(){
    > >>    if(!requireNamespace("EBImage", quietly = TRUE)) {
    > >>      inst <-
    > >>      switch(menu(c("Yes", "No"), title = "Package {EBImage} required
    > >> but not
    > >> available.\nDo you want to install it now?"),
    

Re: [R-pkg-devel] Checking package dependencies before loading namespace

[Tiago Olivoto]

Thanks for your response Martin,
I'm definitely thinking to use BiocManager::install("EBImage") since it is
the official suggestion of the Bioconductor community. Anyway, I've been
learning a lot from this discussion. Thanks all!!
Best,
Tiago

Em sex., 3 de set. de 2021 às 12:58, Martin Morgan 
escreveu:

> The specific repository you've chosen is not what you want to do. This
> will always install EBImage from Bioconductor version 3.13, but
> Bioconductor version 3.13 is only relevant for R-4.1 (see
> https://bioconductor.org/about/release-announcements/)
>
> Personally, I would encourage you to follow the Bioconductor community
> best practice of BiocManager::install("EBImage"). In that way you will get
> the version of EBImage that has been tested with other Bioconductor
> packages in the same release, and on the version of R in use by your user.
>
> If you were to use a specific repository, it should the one that is as
> good as base R can do (this can be different from the version that
> BiocManager would choose because R's release cycle is different from
> Bioconductor's). I think this is most easily accomplished by
> utils::chooseBioCmirror(), and then selecting the 0-Bioconductor
> repository. That's a lot to tell your users... Maybe others in the R
> community have a better way (the key information is in
> tools:::.BioC_version_associated_with_R_version(), but that is not an
> exported function so not recommended for CRAN packages...)
>
> Martin Morgan
>
> On 9/1/21, 8:13 AM, "R-package-devel on behalf of Tiago Olivoto" <
> r-package-devel-boun...@r-project.org on behalf of tiagooliv...@gmail.com>
> wrote:
>
> Thank you, Duncan and Uwe for the suggestions.
>  I followed your instructions and created a function to check for
> EBImage
> that is only called in an interactive section and, if necessary, ask
> the
> user to install the package with install.packages("EBImage", repos="
> https://bioconductor.org/packages/3.13/bioc;)
>
> Best,
> Tiago
>
> Em qua., 1 de set. de 2021 às 03:53, Uwe Ligges <
> lig...@statistik.tu-dortmund.de> escreveu:
>
> > Two more comments.
> >
> > 1. Note that your code only works in interactice mode, not when
> checking
> > your package as it waits infinitely for the user's choice.
> >
> > 2. I do not see an advantage of installing BiocManager if EBImage is
> > needed, the essential part is simply to select BioC as a repository
> to
> > install packages from.
> >
> > Best,
> > Uwe Ligges
> >
> >
> > On 31.08.2021 23:33, Duncan Murdoch wrote:
> > > People shouldn't be able to install your package unless the "hard"
> > > dependencies are available.
> > >
> > > If EBImage isn't essential to your package, you should make it a
> "soft"
> > > dependency by listing it in Suggests and checking for it every
> time you
> > > use it.
> > >
> > > Duncan Murdoch
> > >
> > > On 31/08/2021 3:20 p.m., Tiago Olivoto wrote:
> > >> Dear all,
> > >> I have a package called pliman
> > >> 
> > >> which depends on the Bioconductor package EBImage.
> > >>
> > >> When running install.packages("pliman") I get the following
> warning
> > >>
> > >> Warning in install.packages :  dependency ‘EBImage’ is not
> available
> > >>
> > >> and thus when loading the package with library(pliman), the
> following
> > >> error
> > >> occurs
> > >>
> > >> Erro: package or namespace load failed for ‘pliman’ in
> loadNamespace(i,
> > >> c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
> > >>   there is no package called ‘EBImage’
> > >>
> > >> I created a check function to check if EBImage is available and if
> > >> not, ask
> > >> users if they want to install it
> > >>
> > >> ---
> > >> check_ebi <- function(){
> > >>if(!requireNamespace("EBImage", quietly = TRUE)) {
> > >>  inst <-
> > >>  switch(menu(c("Yes", "No"), title = "Package {EBImage}
> required
> > >> but not
> > >> available.\nDo you want to install it now?"),
> > >> "yes", "no")
> > >>  if(inst == "yes"){
> > >>if (!requireNamespace("BiocManager", quietly = TRUE)){
> > >>  install.packages("BiocManager")
> > >>}
> > >>BiocManager::install("EBImage", ask = FALSE, update =
> FALSE)
> > >>  } else{
> > >>message("To use {pliman}, first install {EBImage} with
> > >> 'BiocManager::install(\"EBImage\")'.")
> > >>  }
> > >>}
> > >> }
> > >> ---
> > >>
> > >> Is there any way to run this function prior to namespace loading?
> I
> > tried
> > >> putting check_ebi() into .onLoad() but the same error occurs.
> > >>
> > >> Thanks in advance for any suggestions.
> > >> Tiago
> > >>
> > >> [[alternative HTML 

Re: [R-pkg-devel] Checking package dependencies before loading namespace

[Martin Morgan]

The specific repository you've chosen is not what you want to do. This will 
always install EBImage from Bioconductor version 3.13, but Bioconductor version 
3.13 is only relevant for R-4.1 (see 
https://bioconductor.org/about/release-announcements/)

Personally, I would encourage you to follow the Bioconductor community best 
practice of BiocManager::install("EBImage"). In that way you will get the 
version of EBImage that has been tested with other Bioconductor packages in the 
same release, and on the version of R in use by your user.

If you were to use a specific repository, it should the one that is as good as 
base R can do (this can be different from the version that BiocManager would 
choose because R's release cycle is different from Bioconductor's). I think 
this is most easily accomplished by utils::chooseBioCmirror(), and then 
selecting the 0-Bioconductor repository. That's a lot to tell your users... 
Maybe others in the R community have a better way (the key information is in 
tools:::.BioC_version_associated_with_R_version(), but that is not an exported 
function so not recommended for CRAN packages...)

Martin Morgan

On 9/1/21, 8:13 AM, "R-package-devel on behalf of Tiago Olivoto" 
 
wrote:

Thank you, Duncan and Uwe for the suggestions.
 I followed your instructions and created a function to check for EBImage
that is only called in an interactive section and, if necessary, ask the
user to install the package with install.packages("EBImage", repos="
https://bioconductor.org/packages/3.13/bioc;)

Best,
Tiago

Em qua., 1 de set. de 2021 às 03:53, Uwe Ligges <
lig...@statistik.tu-dortmund.de> escreveu:

> Two more comments.
>
> 1. Note that your code only works in interactice mode, not when checking
> your package as it waits infinitely for the user's choice.
>
> 2. I do not see an advantage of installing BiocManager if EBImage is
> needed, the essential part is simply to select BioC as a repository to
> install packages from.
>
> Best,
> Uwe Ligges
>
>
> On 31.08.2021 23:33, Duncan Murdoch wrote:
> > People shouldn't be able to install your package unless the "hard"
> > dependencies are available.
> >
> > If EBImage isn't essential to your package, you should make it a "soft"
> > dependency by listing it in Suggests and checking for it every time you
> > use it.
> >
> > Duncan Murdoch
> >
> > On 31/08/2021 3:20 p.m., Tiago Olivoto wrote:
> >> Dear all,
> >> I have a package called pliman
> >> 
> >> which depends on the Bioconductor package EBImage.
> >>
> >> When running install.packages("pliman") I get the following warning
> >>
> >> Warning in install.packages :  dependency ‘EBImage’ is not available
> >>
> >> and thus when loading the package with library(pliman), the following
> >> error
> >> occurs
> >>
> >> Erro: package or namespace load failed for ‘pliman’ in loadNamespace(i,
> >> c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
> >>   there is no package called ‘EBImage’
> >>
> >> I created a check function to check if EBImage is available and if
> >> not, ask
> >> users if they want to install it
> >>
> >> ---
> >> check_ebi <- function(){
> >>if(!requireNamespace("EBImage", quietly = TRUE)) {
> >>  inst <-
> >>  switch(menu(c("Yes", "No"), title = "Package {EBImage} required
> >> but not
> >> available.\nDo you want to install it now?"),
> >> "yes", "no")
> >>  if(inst == "yes"){
> >>if (!requireNamespace("BiocManager", quietly = TRUE)){
> >>  install.packages("BiocManager")
> >>}
> >>BiocManager::install("EBImage", ask = FALSE, update = FALSE)
> >>  } else{
> >>message("To use {pliman}, first install {EBImage} with
> >> 'BiocManager::install(\"EBImage\")'.")
> >>  }
> >>}
> >> }
> >> ---
> >>
> >> Is there any way to run this function prior to namespace loading? I
> tried
> >> putting check_ebi() into .onLoad() but the same error occurs.
> >>
> >> Thanks in advance for any suggestions.
> >> Tiago
> >>
> >> [[alternative HTML version deleted]]
> >>
> >> __
> >> R-package-devel@r-project.org mailing list
> >> https://stat.ethz.ch/mailman/listinfo/r-package-devel
> >>
> >
> > __
> > R-package-devel@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-package-devel
>

[[alternative HTML version deleted]]

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Re: [R-pkg-devel] Checking package dependencies before loading namespace

[Tiago Olivoto]

Thank you, Duncan and Uwe for the suggestions.
 I followed your instructions and created a function to check for EBImage
that is only called in an interactive section and, if necessary, ask the
user to install the package with install.packages("EBImage", repos="
https://bioconductor.org/packages/3.13/bioc;)

Best,
Tiago

Em qua., 1 de set. de 2021 às 03:53, Uwe Ligges <
lig...@statistik.tu-dortmund.de> escreveu:

> Two more comments.
>
> 1. Note that your code only works in interactice mode, not when checking
> your package as it waits infinitely for the user's choice.
>
> 2. I do not see an advantage of installing BiocManager if EBImage is
> needed, the essential part is simply to select BioC as a repository to
> install packages from.
>
> Best,
> Uwe Ligges
>
>
> On 31.08.2021 23:33, Duncan Murdoch wrote:
> > People shouldn't be able to install your package unless the "hard"
> > dependencies are available.
> >
> > If EBImage isn't essential to your package, you should make it a "soft"
> > dependency by listing it in Suggests and checking for it every time you
> > use it.
> >
> > Duncan Murdoch
> >
> > On 31/08/2021 3:20 p.m., Tiago Olivoto wrote:
> >> Dear all,
> >> I have a package called pliman
> >> 
> >> which depends on the Bioconductor package EBImage.
> >>
> >> When running install.packages("pliman") I get the following warning
> >>
> >> Warning in install.packages :  dependency ‘EBImage’ is not available
> >>
> >> and thus when loading the package with library(pliman), the following
> >> error
> >> occurs
> >>
> >> Erro: package or namespace load failed for ‘pliman’ in loadNamespace(i,
> >> c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
> >>   there is no package called ‘EBImage’
> >>
> >> I created a check function to check if EBImage is available and if
> >> not, ask
> >> users if they want to install it
> >>
> >> ---
> >> check_ebi <- function(){
> >>if(!requireNamespace("EBImage", quietly = TRUE)) {
> >>  inst <-
> >>  switch(menu(c("Yes", "No"), title = "Package {EBImage} required
> >> but not
> >> available.\nDo you want to install it now?"),
> >> "yes", "no")
> >>  if(inst == "yes"){
> >>if (!requireNamespace("BiocManager", quietly = TRUE)){
> >>  install.packages("BiocManager")
> >>}
> >>BiocManager::install("EBImage", ask = FALSE, update = FALSE)
> >>  } else{
> >>message("To use {pliman}, first install {EBImage} with
> >> 'BiocManager::install(\"EBImage\")'.")
> >>  }
> >>}
> >> }
> >> ---
> >>
> >> Is there any way to run this function prior to namespace loading? I
> tried
> >> putting check_ebi() into .onLoad() but the same error occurs.
> >>
> >> Thanks in advance for any suggestions.
> >> Tiago
> >>
> >> [[alternative HTML version deleted]]
> >>
> >> __
> >> R-package-devel@r-project.org mailing list
> >> https://stat.ethz.ch/mailman/listinfo/r-package-devel
> >>
> >
> > __
> > R-package-devel@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-package-devel
>

[[alternative HTML version deleted]]

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Re: [R-pkg-devel] Checking package dependencies before loading namespace

[Uwe Ligges]

Two more comments.

1. Note that your code only works in interactice mode, not when checking 
your package as it waits infinitely for the user's choice.


2. I do not see an advantage of installing BiocManager if EBImage is 
needed, the essential part is simply to select BioC as a repository to 
install packages from.


Best,
Uwe Ligges


On 31.08.2021 23:33, Duncan Murdoch wrote:
People shouldn't be able to install your package unless the "hard" 
dependencies are available.


If EBImage isn't essential to your package, you should make it a "soft" 
dependency by listing it in Suggests and checking for it every time you 
use it.


Duncan Murdoch

On 31/08/2021 3:20 p.m., Tiago Olivoto wrote:

Dear all,
I have a package called pliman 


which depends on the Bioconductor package EBImage.

When running install.packages("pliman") I get the following warning

Warning in install.packages :  dependency ‘EBImage’ is not available

and thus when loading the package with library(pliman), the following 
error

occurs

Erro: package or namespace load failed for ‘pliman’ in loadNamespace(i,
c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
  there is no package called ‘EBImage’

I created a check function to check if EBImage is available and if 
not, ask

users if they want to install it

---
check_ebi <- function(){
   if(!requireNamespace("EBImage", quietly = TRUE)) {
 inst <-
 switch(menu(c("Yes", "No"), title = "Package {EBImage} required 
but not

available.\nDo you want to install it now?"),
    "yes", "no")
 if(inst == "yes"){
   if (!requireNamespace("BiocManager", quietly = TRUE)){
 install.packages("BiocManager")
   }
   BiocManager::install("EBImage", ask = FALSE, update = FALSE)
 } else{
   message("To use {pliman}, first install {EBImage} with
'BiocManager::install(\"EBImage\")'.")
 }
   }
}
---

Is there any way to run this function prior to namespace loading? I tried
putting check_ebi() into .onLoad() but the same error occurs.

Thanks in advance for any suggestions.
Tiago

[[alternative HTML version deleted]]

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Re: [R-pkg-devel] Checking package dependencies before loading namespace

[Duncan Murdoch]

People shouldn't be able to install your package unless the "hard" 
dependencies are available.


If EBImage isn't essential to your package, you should make it a "soft" 
dependency by listing it in Suggests and checking for it every time you 
use it.


Duncan Murdoch

On 31/08/2021 3:20 p.m., Tiago Olivoto wrote:

Dear all,
I have a package called pliman 
which depends on the Bioconductor package EBImage.

When running install.packages("pliman") I get the following warning

Warning in install.packages :  dependency ‘EBImage’ is not available

and thus when loading the package with library(pliman), the following error
occurs

Erro: package or namespace load failed for ‘pliman’ in loadNamespace(i,
c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
  there is no package called ‘EBImage’

I created a check function to check if EBImage is available and if not, ask
users if they want to install it

---
check_ebi <- function(){
   if(!requireNamespace("EBImage", quietly = TRUE)) {
 inst <-
 switch(menu(c("Yes", "No"), title = "Package {EBImage} required but not
available.\nDo you want to install it now?"),
"yes", "no")
 if(inst == "yes"){
   if (!requireNamespace("BiocManager", quietly = TRUE)){
 install.packages("BiocManager")
   }
   BiocManager::install("EBImage", ask = FALSE, update = FALSE)
 } else{
   message("To use {pliman}, first install {EBImage} with
'BiocManager::install(\"EBImage\")'.")
 }
   }
}
---

Is there any way to run this function prior to namespace loading? I tried
putting check_ebi() into .onLoad() but the same error occurs.

Thanks in advance for any suggestions.
Tiago

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[R-pkg-devel] Checking package dependencies before loading namespace

[Tiago Olivoto]

Dear all,
I have a package called pliman 
which depends on the Bioconductor package EBImage.

When running install.packages("pliman") I get the following warning

Warning in install.packages :  dependency ‘EBImage’ is not available

and thus when loading the package with library(pliman), the following error
occurs

Erro: package or namespace load failed for ‘pliman’ in loadNamespace(i,
c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
 there is no package called ‘EBImage’

I created a check function to check if EBImage is available and if not, ask
users if they want to install it

---
check_ebi <- function(){
  if(!requireNamespace("EBImage", quietly = TRUE)) {
inst <-
switch(menu(c("Yes", "No"), title = "Package {EBImage} required but not
available.\nDo you want to install it now?"),
   "yes", "no")
if(inst == "yes"){
  if (!requireNamespace("BiocManager", quietly = TRUE)){
install.packages("BiocManager")
  }
  BiocManager::install("EBImage", ask = FALSE, update = FALSE)
} else{
  message("To use {pliman}, first install {EBImage} with
'BiocManager::install(\"EBImage\")'.")
}
  }
}
---

Is there any way to run this function prior to namespace loading? I tried
putting check_ebi() into .onLoad() but the same error occurs.

Thanks in advance for any suggestions.
Tiago

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