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[R-pkg-devel] Assistance with 'Surv' and 'is.Surv' Error in check_win_devel

6 messages · Ivan Krylov, Gabriel Constantino Blain, Uwe Ligges

Original
Gabriel Constantino Blain
# 
Dear All,
When I run check_win_devel() on my package, I encounter the following error:

-------------------------
Error: objects 'Surv', 'is.Surv' are not exported by 'namespace:survival'
Execution halted
ERROR: lazy loading failed for package 'SPIChanges'
* removing 'd:/RCompile/CRANguest/R-devel/lib/SPIChanges'


----------------------
However, when I run devtools::check() locally, no errors are reported. I have already included the following directive in the function where the error seems to originate:

-------------------
#' @importFrom survival Surv is.Surv

------------

The issue seems to have started after I added the following lines to my code:

----------------------
loess_model <- stats::loess(zero_rain ~ time, span = 0.8)
prob_zero_rain <- Rmpfr::pmax(0, Rmpfr::pmin(1, stats::predict(loess_model)))

-----------

I do not call Surv or is.Surv explicitly in my package, and I suspect this error might be related to a dependency being triggered indirectly during lazy loading.
Any help or insights on how to resolve this would be greatly appreciated.
Thank you,
Gabriel Constantino Blain
Ivan Krylov
# 
? Tue, 28 Jan 2025 10:01:00 +0000
Gabriel Constantino Blain <gabriel.blain at sp.gov.br> ?????:
Since Surv and is.Surv are documented functions exported from the
'survival' package, something could be wrong with the copy of
'survival' installed on Win-Builder. Packages uploaded to Win-Builder
are temporarily installed there to be used by other packages uploaded
later (and then regularly deleted). Perhaps last time 'survival' was
uploaded on Win-Builder, something went wrong with the package.

If the problem doesn't go away by itself, it may be worth asking Dr.
Uwe Ligges for advice.
Gabriel Constantino Blain
# 
Dear Ivan,
Thank you for your response.
I will wait for one or two days to see if the problem resolves itself. If it persists, I will reach out to Dr. Uwe Ligges for further advice.
Best regards,
Gabriel
Uwe Ligges
# 
Have you tried at least twice? If it persists, please let me know and 
forward the message you got from winbuilder.

Best,
Uwe Ligges
On 28.01.2025 15:47, Ivan Krylov via R-package-devel wrote:
Gabriel Constantino Blain
# 
Dear Dr. Uwe Ligges,
I tried at least 5 times.
Please se below the message I just got from winbuilder.
Best
Gabriel Blain
------------------------
Dear package maintainer,

this notification has been generated automatically.
Your package SPIChanges_0.0.0.9000.tar.gz has been built (if working) and checked for Windows.
Please check the log files and (if working) the binary package at:
https://win-builder.r-project.org/XW2OAzbdlK2v
The files will be removed after roughly 72 hours.
Installation time in seconds: 2
Check time in seconds: 13
Status: 1 ERROR, 1 NOTE
R Under development (unstable) (2025-01-28 r87664 ucrt)

All the best,
Uwe Ligges
(CRAN maintainer of binary packages for Windows)
Uwe Ligges
# 
Issue found and fixed: someone else submitted some broken survival for 
the on demand checks which was stuck in the on demand library.
You should be able to resubmit without issues now.

Best,
Uwe
On 29.01.2025 13:52, Gabriel Constantino Blain wrote: