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.
installing with remotes package
6 messages · Michael Sewell, Simon Urbanek, Calboli Federico (LUKE) +2 more
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 <michael.sewell at ed.ac.uk> 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_<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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I?d look into trying with groundhog: https://cran.r-project.org/web/packages/groundhog/index.html Cheers F Federico Calboli Erityisasiantuntija, tutkimusrahoitus Palveluryhm?t 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_<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Ftwitter.com%2Fpichaelmichael_&data=05%7C01%7Cfederico.calboli%40luke.fi%7C80025d976c2047c832f108dbf75fa3cc%7C7c14dfa4c0fc47259f0476a443deb095%7C0%7C0%7C638375762373011378%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=Uenl1J6FnYGt%2FDhdcssdq4s6bE%2FzhMAVC%2BGZRbEosvM%3D&reserved=0<https://twitter.com/pichaelmichael_>> Linkedin<https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.linkedin.com%2Fin%2Fmichael-sewell-2a3493bb&data=05%7C01%7Cfederico.calboli%40luke.fi%7C80025d976c2047c832f108dbf75fa3cc%7C7c14dfa4c0fc47259f0476a443deb095%7C0%7C0%7C638375762373011378%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=kUDsERVvXeUd5mQITRSx63Ws1hIXswMwgh285M9gwkk%3D&reserved=0<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.
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 ------
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 <uri.sohn at gmail.com>
Sent: 07 December 2023 20:48
To: Michael Sewell <michael.sewell at ed.ac.uk>; r-sig-mac at r-project.org <r-sig-mac at r-project.org>
Subject: Re: [R-SIG-Mac] installing with remotes package
Sent: 07 December 2023 20:48
To: Michael Sewell <michael.sewell at ed.ac.uk>; r-sig-mac at r-project.org <r-sig-mac at r-project.org>
Subject: Re: [R-SIG-Mac] installing with remotes package
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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 ------
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 at 4.4.0")
Gabor
On Thu, Dec 7, 2023 at 9:03?PM Michael Sewell <michael.sewell at ed.ac.uk> 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_<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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