DLL not found: maybe not installed for this architecture?

SvN · February 28, 2020, 2:21am

Package dependencies not installed

I've installed a fresh copy of RStudio on a shiny new Windows notebook.
However, few if any of the installed packages are working successfully, perhaps due to a failure to install needed dependencies.

Steps taken so far -

Installed RStudio on a fresh laptop
Deselected Tools > Global Options > Restore .RData into workspace at startup
quit and Restarted RStudio
used "Install Packages" from menu to install a package, being sure to select "Install Dependencies"
once that appears to succesfully execute, I call the package with library(), which then complains that dependencies are missing.

Here's an example using the package 'plm'

"Install Packages" produces and runs the code

install.packages("plm")

producing the output

Installing package into ‘C:/Users/00011124/Documents/R/win-library/3.6’
(as ‘lib’ is unspecified)
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.6/plm_2.2-2.zip'
Content type 'application/zip' length 1679303 bytes (1.6 MB)
downloaded 1.6 MB

package ‘plm’ successfully unpacked and MD5 sums checked

The downloaded binary packages are in

C:\Users\00011124\AppData\Local\Temp\RtmpIv24hI\downloaded_packages*

library(plm)

then produces

Error: package or namespace load failed for ‘plm’ in library.dynam(lib, package, package.lib):
DLL ‘zoo’ not found: maybe not installed for this architecture?

Suggestions gratefully received.

System Information:

RStudio Edition: Desktop
RStudio Version: 'Orange Blossom' 1.2.5033
OS Version: Win 10 x64
R Version: 3.6.2 (2019-12-12)

Also:

Your sessionInfo():
R version 3.6.2 (2019-12-12)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18362)

Matrix products: default

locale:
[1] LC_COLLATE=English_Canada.1252 LC_CTYPE=English_Canada.1252
[3] LC_MONETARY=English_Canada.1252 LC_NUMERIC=C
[5] LC_TIME=English_Canada.1252

attached base packages:
[1] stats graphics grDevices utils datasets methods base

loaded via a namespace (and not attached):
[1] MASS_7.3-51.4 compiler_3.6.2 magrittr_1.5 tools_3.6.2
[5] bdsmatrix_1.3-4 stringi_1.4.6 grid_3.6.2 gbRd_0.4-11
[9] stringr_1.4.0 Formula_1.2-3 bibtex_0.4.2.2 Rdpack_0.11-0
[13] lattice_0.20-38

From Troubleshooting Guide: Using RStudio

nirgrahamuk · February 28, 2020, 2:39am

try

install.packages("zoo")

andresrcs · February 28, 2020, 3:05am

What happens if you reinstall zoo package

install.packages("zoo")

SvN · February 28, 2020, 4:13am

> install.packages("zoo")

Installing package into ‘C:/Users/00011124/Documents/R/win-library/3.6’
(as ‘lib’ is unspecified)
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.6/zoo_1.8-7.zip'
Content type 'application/zip' length 1108097 bytes (1.1 MB)
downloaded 1.1 MB

package ‘zoo’ successfully unpacked and MD5 sums checked

The downloaded binary packages are in
	C:\Users\00011124\AppData\Local\Temp\RtmpIv24hI\downloaded_packages

> library(plm)

Error: package or namespace load failed for ‘plm’ in get(Info[i, 1], envir = env):
 lazy-load database 'C:/Users/00011124/Documents/R/win-library/3.6/zoo/R/zoo.rdb' is corrupt
In addition: Warning message:
In get(Info[i, 1], envir = env) : internal error -3 in R_decompr

andresrcs · February 28, 2020, 4:16am

Can you try on a fresh R session? You can restart your R session with Ctrl+Shift+F10

SvN · February 28, 2020, 4:18am

Restarting R session...

library(plm)

Error: package or namespace load failed for ‘plm’ in library.dynam(lib, package, package.lib):
DLL ‘lmtest’ not found: maybe not installed for this architecture?

andresrcs · February 28, 2020, 4:20am

Can you install this one too, restart your session and try again?
You are going to have to repeat this process until there are no package dependencies missing.

SvN · February 28, 2020, 4:23am

Andresrcs, I appreciate your effort, but the point is

The problem is not just getting one package to run; the problem is getting a wide range of packages to run
package installation is supposed to track and automatically install dependencies...and has always done so for me in previous configurations. Something is systematically wrong here that needs fixing.

andresrcs · February 28, 2020, 4:27am

Not by default, you can try setting dependencies = TRUE while installing but very likely this is going to happen from time to time, that is why this forum has lots and lots of topics like yours.

SvN · February 28, 2020, 4:34am

Regarding defaults,

My reading of the manpage for install.packages() is that dependencies = NA is the default, , and it states The default, NA, means c("Depends", "Imports", "LinkingTo")
I noted at the outset that when installing packages through the menu system, I selected the "install dependencies" option.

I don't think the dependencies are being installed, despite this.
I think you agree.

Does that seem odd to you, or is it just me?

andresrcs · February 28, 2020, 4:36am

Yes, it is odd, but being R open source and packages freely contributed by a large number of people, I think you just have to learn to live with this.

SvN · February 28, 2020, 2:11pm

After a bit more troubleshooting, I found the following to work.

install.packages("plm",dependencies = TRUE)

Despite having previously tried to install the plm package with the default dependencies = NA, using dependencies = TRUE as andresrcs previously suggested installed roughly 40 new packages. However, then trying

library(plm)

produced evidence of more missing dependencies

DLL ‘lmtest’ not found: maybe not installed for this architecture?

Following this with

install.packages("lmtest",dependencies = TRUE)

installed an additional 3 packages. After restarting R with Ctrl-Shift-F10

library(plm)

then worked correctly.

Lesson learned: don't trust the default dependencies = NA, use dependencies=TRUE and iterate as required, restarting R to clear warnings that lazy-load database XXXXXXX is corrupt

nirgrahamuk · February 28, 2020, 2:45pm

Question to long time R experts on the forum, is this issue something like install.packages() doing a reasonable job of identifing and ordering top level dependencies and imports , but not tackling dependencies of dependencies, a la , a recursive scheme ? or would it normally try to do that ?
Browsing around, I saw that someone had make an explicit approach to try to track all dependencies down the tree, is that to plug a known gap with install.packages. or is this a misunderstanding ?

SvN · February 28, 2020, 3:32pm

I'm admittedly the opposite of a long time R expert, but as a casual user for > 5 yrs, I've never run into this kind of dependency problem using earlier versions of RStudio. In contrast, with the current version I'm running into this with most packages that I try to install.

This appears to be a previously solved problem that has resurfaced.

andresrcs · February 28, 2020, 3:49pm

Rstudio is an IDE it has little to nothing to do with the package installation (other than providing a GUI if you choose to use it).

SvN · February 28, 2020, 3:52pm

Quite.

So would you agree that this appears to be a previously solved problem in R that has resurfaced?

andresrcs · February 28, 2020, 3:54pm

Not in my experience, this kind of installation problems happen all the time and I honestly can't remember any moment since I use R where this sort of things weren't an issue.

andresrcs · February 28, 2020, 4:03pm

I suspect that the hassle free installation experience that you remember was related to you having a package library with a lot of the package dependencies already installed thus avoiding this kind of problems but since you updated your setup that is no longer the case right now, but after some installation processes you are going to start getting the same experience as before.

system · March 20, 2020, 4:03pm

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