Re: [R-SIG-Mac] installing with remotes package
This usually happens when you are on a slow network, and downloading
the archive.rds file fails within the default 60 seconds. You can
increase the timeout from 60 seconds to 600 or even more by setting
the timeout option:
options(timeout = 600)
A more modern option is to use the pak package, which has larger
default timeouts and many other goodies as well:
pak::pkg_install("Seurat@4.4.0")
Gabor
On Thu, Dec 7, 2023 at 9:03 PM Michael Sewell wrote:
>
> Hi - I'm a postdoc at the University of Edinburgh who's urgently trying to
> install an older version of a package (Seurat) listed on CRAN but without
> success. The package is Seurat_4.4.0.tar.gz.
>
> I currently work on a M1 Macbook Pro (with Sonoma installed) with RStudio
> version 4.3.2 and tried to install the package using the following code:
> remotes::install_version(package = 'Seurat', version =
> package_version('4.4.0'))
>
> However this appears to be unsuccessful - I was wondering if there is any
> guidance on how to install these on M1 macbooks? I have also tried
> uninstalling and reinstalling R many times which again did not succeed. Any
> help you could give me on this would be much appreciated.
>
> BW,
> Michael
>
>
> Michael Sewell
> Research Fellow
> Montagne Lab
> UK DRI
> The University of Edinburgh
> Twitter: @pichaelmichael_
> Linkedin
> The University of Edinburgh is a charitable body, registered in Scotland,
> with registration number SC005336. Is e buidheann carthannais a th' ann an
> Oilthigh Dhùn Èideann, clàraichte an Alba, àireamh clàraidh SC005336.
>
> [[alternative HTML version deleted]]
>
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Re: [R-SIG-Mac] installing with remotes package
thanks so much everyone the groundhog package did indeed work and has saved me
many more hours of frustration. Really appreciate it.
BW,
Michael
Michael Sewell
Research Fellow
Montagne Lab
UK DRI
The University of Edinburgh
Twitter: @pichaelmichael_<https://twitter.com/pichaelmichael_>
Linkedin<https://www.linkedin.com/in/michael-sewell-2a3493bb>
From: Uri Simonsohn
Sent: 07 December 2023 20:48
To: Michael Sewell ; r-sig-mac@r-project.org
Subject: Re: [R-SIG-Mac] installing with remotes package
This email was sent to you by someone outside the University.
You should only click on links or attachments if you are certain that the email
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I just tried it with groundhog and seems to have worked.
On R 4.3.1, on a Mac M1, I ran this:
library('groundhog')
groundhog.library('Seurat','2023-11-01')
Uri
ps: you can get release dates of pkgs with groundhog::toc(pkg)
-- Original Message --
From "Michael Sewell" mailto:michael.sew...@ed.ac.uk>>
To "r-sig-mac@r-project.org<mailto:r-sig-mac@r-project.org>"
mailto:r-sig-mac@r-project.org>>
Date 12/7/2023 6:52:35 PM
Subject [R-SIG-Mac] installing with remotes package
Hi - I'm a postdoc at the University of Edinburgh who's urgently trying to
install an older version of a package (Seurat) listed on CRAN but without
success. The package is Seurat_4.4.0.tar.gz.
I currently work on a M1 Macbook Pro (with Sonoma installed) with RStudio
version 4.3.2 and tried to install the package using the following code:
remotes::install_version(package = 'Seurat', version = package_version('4.4.0'))
However this appears to be unsuccessful - I was wondering if there is any
guidance on how to install these on M1 macbooks? I have also tried uninstalling
and reinstalling R many times which again did not succeed. Any help you could
give me on this would be much appreciated.
BW,
Michael
Michael Sewell
Research Fellow
Montagne Lab
UK DRI
The University of Edinburgh
Twitter: @pichaelmichael_<https://twitter.com/pichaelmichael_>
Linkedin<https://www.linkedin.com/in/michael-sewell-2a3493bb>
The University of Edinburgh is a charitable body, registered in Scotland, with
registration number SC005336. Is e buidheann carthannais a th' ann an Oilthigh
Dh�n �ideann, cl�raichte an Alba, �ireamh cl�raidh SC005336.
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Re: [R-SIG-Mac] installing with remotes package
I just tried it with groundhog and seems to have worked.
On R 4.3.1, on a Mac M1, I ran this:
library('groundhog')
groundhog.library('Seurat','2023-11-01')
Uri
ps: you can get release dates of pkgs with groundhog::toc(pkg)
-- Original Message --
>From "Michael Sewell"
To "r-sig-mac@r-project.org"
Date 12/7/2023 6:52:35 PM
Subject [R-SIG-Mac] installing with remotes package
>Hi - I'm a postdoc at the University of Edinburgh who's urgently trying to
>install an older version of a package (Seurat) listed on CRAN but without
>success. The package is Seurat_4.4.0.tar.gz.
>
>I currently work on a M1 Macbook Pro (with Sonoma installed) with RStudio
>version 4.3.2 and tried to install the package using the following code:
>remotes::install_version(package = 'Seurat', version =
>package_version('4.4.0'))
>
>However this appears to be unsuccessful - I was wondering if there is any
>guidance on how to install these on M1 macbooks? I have also tried
>uninstalling and reinstalling R many times which again did not succeed. Any
>help you could give me on this would be much appreciated.
>
>BW,
>Michael
>
>
>Michael Sewell
>Research Fellow
>Montagne Lab
>UK DRI
>The University of Edinburgh
>Twitter: @pichaelmichael_
>Linkedin
>The University of Edinburgh is a charitable body, registered in Scotland, with
>registration number SC005336. Is e buidheann carthannais a th' ann an Oilthigh
>Dh�n �ideann, cl�raichte an Alba, �ireamh cl�raidh SC005336.
>
> [[alternative HTML version deleted]]
>
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Re: [R-SIG-Mac] installing with remotes package
I’d look into trying with groundhog:
https://cran.r-project.org/web/packages/groundhog/index.html
Cheers
F
Federico Calboli
Erityisasiantuntija, tutkimusrahoitus
Palveluryhmät
Luonnonvarakeskus
Hi - I'm a postdoc at the University of Edinburgh who's urgently trying to
install an older version of a package (Seurat) listed on CRAN but without
success. The package is Seurat_4.4.0.tar.gz.
I currently work on a M1 Macbook Pro (with Sonoma installed) with RStudio
version 4.3.2 and tried to install the package using the following code:
remotes::install_version(package = 'Seurat', version = package_version('4.4.0'))
However this appears to be unsuccessful - I was wondering if there is any
guidance on how to install these on M1 macbooks? I have also tried uninstalling
and reinstalling R many times which again did not succeed. Any help you could
give me on this would be much appreciated.
BW,
Michael
Michael Sewell
Research Fellow
Montagne Lab
UK DRI
The University of Edinburgh
Twitter:
@pichaelmichael_>
Linkedin>
The University of Edinburgh is a charitable body, registered in Scotland, with
registration number SC005336. Is e buidheann carthannais a th' ann an Oilthigh
Dh�n �ideann, cl�raichte an Alba, �ireamh cl�raidh SC005336.
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Re: [R-SIG-Mac] installing with remotes package
Michael,
remotes is a contributed package, so you should contact the author if that is
what fails (you didn't say). FWIW only the latest version package binaries are
available on CRAN, so if you need a specific older version of a package you
need to compile it from sources - so chances are you are missing the necessary
dependencies or tools to do that, but we can't tell without more details about
what exactly fails for you.
Cheers,
Simon
> On Dec 8, 2023, at 6:52 AM, Michael Sewell wrote:
>
> Hi - I'm a postdoc at the University of Edinburgh who's urgently trying to
> install an older version of a package (Seurat) listed on CRAN but without
> success. The package is Seurat_4.4.0.tar.gz.
>
> I currently work on a M1 Macbook Pro (with Sonoma installed) with RStudio
> version 4.3.2 and tried to install the package using the following code:
> remotes::install_version(package = 'Seurat', version =
> package_version('4.4.0'))
>
> However this appears to be unsuccessful - I was wondering if there is any
> guidance on how to install these on M1 macbooks? I have also tried
> uninstalling and reinstalling R many times which again did not succeed. Any
> help you could give me on this would be much appreciated.
>
> BW,
> Michael
>
>
> Michael Sewell
> Research Fellow
> Montagne Lab
> UK DRI
> The University of Edinburgh
> Twitter: @pichaelmichael_
> Linkedin
> The University of Edinburgh is a charitable body, registered in Scotland,
> with registration number SC005336. Is e buidheann carthannais a th' ann an
> Oilthigh Dh�n �ideann, cl�raichte an Alba, �ireamh cl�raidh SC005336.
>
> [[alternative HTML version deleted]]
>
> ___
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> R-SIG-Mac@r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
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