Shiny app no longer deploys (lwgeom)

rebeccakahn · May 14, 2019, 6:55pm

Shiny app loads locally but cannot publish. Worked fine yesterday but no longer works today.

Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/opt/R/3.4.3/lib/R/library/sf/libs/sf.so':
/opt/R/3.4.3/lib/R/library/sf/libs/sf.so: undefined symbol: _ZN17GDALDriverManager14GetDriverCountEv
ERROR: lazy loading failed for package ‘lwgeom’

removing ‘/opt/R/3.4.3/lib/R/library/lwgeom’
################################# End Task Log #################################
Error: Unhandled Exception: Child Task 613557907 failed: Error building image: Error building lwgeom (0.1-6). Build exited with non-zero status: 1
Execution halted

fileunderjeff · May 14, 2019, 9:25pm

I am experiencing the same issue with rgdal. Deployments worked fine until today.

ElijahB · May 14, 2019, 10:58pm

Similar issue here when using the SF package in a Shiny deployment. App worked fine last week, made minor change to a text box today, but now every redeployment errors-out.

Error in value[[3L]](cond) : package or namespace load failed for ‘sf’ in dyn.load(file, DLLpath = DLLpath, ...): unable to load shared object '/opt/R/3.6.0/lib/R/library/sf/libs/sf.so': /opt/R/3.6.0/lib/R/library/sf/libs/sf.so: undefined symbol: _ZN17GDALDriverManager14GetDriverCountEv Calls: local ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous> Execution halted

Does anyone know of any work-arounds or temporary fixes?

david_hodge · May 15, 2019, 1:18am

I have the same issue

Any ideas or workarounds would be much appreciated

james_mckay · May 15, 2019, 3:47am

I am having the same issue. Error message below.

Error in value[[3L]](cond) : 
  package or namespace load failed for ‘sf’ in dyn.load(file, DLLpath = DLLpath, ...):
 unable to load shared object '/opt/R/3.4.4/lib/R/library/sf/libs/sf.so':
  /opt/R/3.4.4/lib/R/library/sf/libs/sf.so: undefined symbol: _ZN17GDALDriverManager14GetDriverCountEv
Calls: local ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
Execution halted

Any kind of work around would be great thanks.

davidmc · May 15, 2019, 3:24pm

Same issue but with rgdal.

fazepher · May 15, 2019, 3:41pm

I ran into the same problem yesterday: everything works locally, fails while deploying to shinyapps.io
Instead of lwgeom, the failure from the sf shared object with that undefined symbol comes when trying to lazy load geogrid. My app doesn't call sf neither geogrid, but I think these come up due to my use of geofacet...

Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/opt/R/3.5.0/lib/R/library/sf/libs/sf.so':
/opt/R/3.5.0/lib/R/library/sf/libs/sf.so: undefined symbol: _ZN17GDALDriverManager14GetDriverCountEv
ERROR: lazy loading failed for package ‘geogrid’

removing ‘/opt/R/3.5.0/lib/R/library/geogrid’################################# End Task Log #################################
Error: Unhandled Exception: Child Task 613846027 failed: Error building image: Error building geogrid (0.1.1). Build exited with non-zero status: 1
Execution halted

ergz · May 15, 2019, 3:52pm

Not sure if this is what fixed it or not, but in shinyapps.io under the app's advanced settings I unchecked Package Cache and then redeployed, this fixed my errors with rgdal.

ElijahB · May 15, 2019, 4:23pm

@ergz This worked, thanks! I actually tried disabling the cache yesterday, but didn't do a full redeploy from rstudio afterwards.

fazepher · May 15, 2019, 5:12pm

This kind of works, thanks!

I noticed you deleted the later post in which you said to turn back on the Package Cache in order to speed up, I guess because you realized that made the error show up again (at least for me it did).

I will live with the slow deploying without Package Cache for now but it would be great if there could be a "faster" solution.

david_hodge · May 15, 2019, 9:37pm

Awesome, this works - thanks!!

olangford · May 21, 2019, 6:42pm

This work around was good for me.

Any ideas when this will be fixed?

ergz · May 21, 2019, 10:35pm

as of yesterday I am able to deploy with Package cache enabled with no issues, so I think its fixed now.

olangford · May 22, 2019, 2:28am

Worked for me too

Rama84 · April 16, 2020, 12:41am

Hi all

I am experiencing this same problem that has been discussed last year. A shiny app using tmap that was working until today, now it fails to deploy with a:

checking proj_api.h usability... no
checking proj_api.h presence... no
checking for proj_api.h... no
configure: error: proj_api.h not found in standard or given locations.
ERROR: configuration failed for package ‘lwgeom’

I tried turning off the Package Cache and still does not work. Any ideas???

Thank you very much

Ftallis · May 5, 2020, 2:36pm

I'm having the same issue. Have you been able to resolve?