• using R Under development (unstable) (2026-03-25 r89703)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-15 (Debian 15.2.0-15) 15.2.0     GNU Fortran (Debian 15.2.0-15) 15.2.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-03-26 13:11:44 UTC
• checking for file ‘ProjectTemplate/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘ProjectTemplate’ version ‘0.11.1’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [1s/1s] OK
• checking package namespace information ... OK
• checking package dependencies ... INFO Package suggested but not available for checking: ‘qs’
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking serialization versions ... OK
• checking whether package ‘ProjectTemplate’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... [1s/1s] OK
• checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
• checking whether the package can be unloaded cleanly ... [1s/1s] OK
• checking whether the namespace can be loaded with stated dependencies ... [0s/1s] OK
• checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
• checking loading without being on the library search path ... [1s/1s] OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [6s/8s] OK
• checking Rd files ... [1s/1s] OK
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... NOTE Unknown package ‘qs’ in Rd xrefs
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking examples ... [1s/1s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [31s/61s] ERROR   Running ‘run-all.R’ [16s/30s]   Running ‘testthat.R’ [16s/30s] Running the tests in ‘tests/run-all.R’ failed. Complete output:   > library(testthat)   >   > test_check("ProjectTemplate")   Loading required package: ProjectTemplate   Loading required package: digest   Loading required package: tibble   Project name: test_projectd038075ef5495   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectd038034940166   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectd03805ba7e4ee   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Configuration for project: test_projectd03805ba7e4ee   version 0.11.1   data_loading TRUE   data_loading_header TRUE   data_ignore   cache_loading TRUE   recursive_loading FALSE   munging TRUE   logging FALSE   logging_level INFO   load_libraries FALSE   libraries reshape2, plyr, tidyverse, stringr, lubridate   as_factors FALSE   tables_type tibble   attach_internal_libraries FALSE   cache_loaded_data TRUE   sticky_variables NONE   underscore_variables TRUE   cache_file_format RData   dummy 999   Configuration for project: test_projectd03805ba7e4ee   version 0.11.1   data_loading TRUE   data_loading_header TRUE   data_ignore   cache_loading TRUE   recursive_loading FALSE   munging TRUE   logging FALSE   logging_level INFO   load_libraries FALSE   libraries reshape2, plyr, tidyverse, stringr, lubridate   as_factors FALSE   tables_type tibble   attach_internal_libraries FALSE   cache_loaded_data TRUE   sticky_variables NONE   underscore_variables TRUE   cache_file_format RData      Additional custom config present for this project:   Objects to clear from memory: config helper.function project.info   Project name: test_projectd03801e752f65   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: foo.reader.R    Running helper script: helpers.R   Autoloading data    Loading data set: example     Creating cache entry from global environment: example   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R     Creating cache entry from global environment: xxxx     Creating cache entry from global environment: xxxx     Creating cache entry from global environment: xxxx     Creating cache entry from global environment: cache.RData   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Following objects not in memory:   Objects to clear from memory: xxxx   Project name: test_projectd0380f697a3e   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: helper.function project.info   Clearing cache for project: test_projectd0380f697a3e   Clearing cache for project: test_projectd038018987c38   Objects to clear from memory: xxx   Project name: test_projectd038018987c38   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R     Creating cache entry from CODE: xxxx   Objects to clear from memory: config project.info   Objects to clear from memory: project.info   Objects to clear from memory: yyy   Following objects not in memory: xxx   Following objects not in memory: xxx   Variables not cleared: config   No objects to clear   Objects to clear from memory: .yyy helper.function project.info   Project name: test_projectd0380543f12d8   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd0380543f12d8   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Configuration for project: test_projectd038072c2b80f   Project name: test_projectd038034b3d7ee   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd03803b606ee8   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R      == Testing 1.R =================================================================      [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]   [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]   [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ] Done!      == Testing 1.R =================================================================      [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]   [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]   [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ] Done!   Current Directory: test_projectd038065abddfd is a ProjectTemplate directory   Cannot create a new project inside an existing one   Please change to another directory and re-run create.project()   Directory: test_projectd038065abddfd is a ProjectTemplate directory   Cannot create a new project inside an existing one   Please change to another directory and re-run create.project()   Directory: test_project2d03804d6aaf79 is a ProjectTemplate directory   Cannot create a new project inside an existing one   Please change to another directory and re-run create.project()   Objects to clear from memory: config helper.function project.info   No objects to clear   Objects to clear from memory: config filed0380571ce037 helper.function project.info     Creating cache entry from CODE: test_data   Current Directory: test_projectd038050e8be29 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Please change to correct directory and re-run load.project()      Current Directory: test_projectd038050e8be29 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run clear.cache() again.      Current Directory: test_projectd038050e8be29 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run cache() again.      Current Directory: test_projectd038050e8be29 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run reload.project() again.      Current Directory: test_projectd038050e8be29 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run test.project() again.      Current Directory: test_projectd038050e8be29 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run stub.tests() again.      Current Directory: test_projectd038050e8be29 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Please change to correct directory and re-run project.config()      Project name: test_projectd03803c357010   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data    Loading data set: Thumbs   Loading required namespace: RSQLite     Creating cache entry from global environment: var_to_cache   Loading required package: data.table      Attaching package: 'data.table'      The following object is masked from 'package:base':          %notin%      Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.    version, data_loading_header, data_ignore, logging_level, tables_type, attach_internal_libraries, cache_loaded_data, sticky_variables, underscore_variables, cache_file_format      There is a new config item called cache_loaded_data which auto-caches data   after it has been loaded from the data directory. This has been switched   off for this project in case it breaks your scripts. However you can switch   it on manually by editing global.dcf      data_tables has been renamed tables_type. It can take the value 'tibble',   'data_table', or 'data_frame. If data_tables is TRUE, tables_type will be   set to 'data_table', otherwise the default 'data_frame' will be used. if you   wish a different default set it manually by editing global.dcf. Future new   projects will use 'tibble' by default.   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.    data_loading_header, data_ignore, logging_level, tables_type, attach_internal_libraries, cache_loaded_data, sticky_variables, underscore_variables, cache_file_format      There is a new config item called cache_loaded_data which auto-caches data   after it has been loaded from the data directory. This has been switched   off for this project in case it breaks your scripts. However you can switch   it on manually by editing global.dcf      data_tables has been renamed tables_type. It can take the value 'tibble',   'data_table', or 'data_frame. If data_tables is TRUE, tables_type will be   set to 'data_table', otherwise the default 'data_frame' will be used. if you   wish a different default set it manually by editing global.dcf. Future new   projects will use 'tibble' by default.   Migrating project configuration   [1] FALSE   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file was missing entries and defaults   have been used. The missing entries are:    cache_loaded_data   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file was missing entries and defaults   have been used. The missing entries are:   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file contained unused entries which have been   removed. The unused entries are:   Migrating project configuration   [1] FALSE   Migrating project configuration   [1] TRUE   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file was missing entries and defaults   have been used. The missing entries are:    tables_type   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file was missing entries and defaults   have been used. The missing entries are:    tables_type   Project name: test_projectd03801ad0978f   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: .Random.seed config helper.function project.info   Project name: test_projectd038041e6e4f7   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd038041e6e4f7   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectd0380762a9309   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd0380762a9309   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectd03805c3356e8   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd03805c3356e8   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectd03801bc0283   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectd0380eadd756   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd0380eadd756   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Objects to clear from memory: config helper.function project.info   Project name: test_projectd038033d87c2a   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd038033d87c2a   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectd038037de5b7   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd038037de5b7   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Objects to clear from memory: config helper.function project.info   Project name: test_projectd03801333a512   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd03801333a512   Loading project configuration   Objects to clear from memory: config helper.function project.info   Project name: test_projectd03802d417e1   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd03802d417e1   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info     Loading table: example_30a     Loading table: example_30b     Loading table: example_31a     Loading table: example_31b     Loading table: example_28   re-encoding from CP1252   re-encoding from CP1252   Objects to clear from memory: config helper.function project.info   Objects to clear from memory: config helper.function project.info   Items in cache will not be cleared   Use reload.project(reset=TRUE) to clear cache also   Objects to clear from memory: helper.function project.info z   Reloading Project ...   Project name: test_projectd038072a11723   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data    Loading cached data set: z   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info x y z   Project name: test_projectd038035eff5c9   Loading project configuration   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd038041d4ee32   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectd03801e4a75c4   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data    Loading data set: file_not_in_full_template    Translating data.frame to tibble: file_not_in_full_template     Creating cache entry from global environment: file_not_in_full_template   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   [1] FALSE   [ FAIL 1 | WARN 214 | SKIP 0 | PASS 870 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-load.R:473:3'): pass munge files to run ────────────────────────   <Rcpp::exception/C++Error/error/condition>   Error: /tmp/check-CRAN-regular-hornik/cache/R/reticulate/uv/python/cpython-3.12.13-linux-x86_64-gnu/lib/libpython3.12.so - /tmp/check-CRAN-regular-hornik/cache/R/reticulate/uv/python/cpython-3.12.13-linux-x86_64-gnu/lib/libpython3.12.so: cannot enable executable stack as shared object requires: Invalid argument   Backtrace:        ▆     1. ├─base::suppressMessages(load.project()) at test-load.R:473:3     2. │ └─base::withCallingHandlers(...)     3. └─ProjectTemplate::load.project()     4. └─ProjectTemplate:::.munge.data(config, my.project.info)     5. └─reticulate::source_python(file.path(dir_name, preprocessing.script))     6. └─reticulate::py_run_file(file, local = FALSE, convert = convert)     7. └─reticulate:::ensure_python_initialized()     8. └─reticulate:::initialize_python()     9. └─base::tryCatch(...)    10. └─base (local) tryCatchList(expr, classes, parentenv, handlers)    11. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])    12. └─value[[3L]](cond)      [ FAIL 1 | WARN 214 | SKIP 0 | PASS 870 ]   Error:   ! Test failures.   Execution halted Running the tests in ‘tests/testthat.R’ failed. Complete output:   > # This file is part of the standard setup for testthat.   > # It is recommended that you do not modify it.   > #   > # Where should you do additional test configuration?   > # Learn more about the roles of various files in:   > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview   > # * https://testthat.r-lib.org/articles/special-files.html   >   > library(testthat)   > library(ProjectTemplate)   Loading required package: digest   Loading required package: tibble   >   > test_check("ProjectTemplate")   Project name: test_projectdad537382285e   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad5342a71675   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad535750924a   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Configuration for project: test_projectdad535750924a   version 0.11.1   data_loading TRUE   data_loading_header TRUE   data_ignore   cache_loading TRUE   recursive_loading FALSE   munging TRUE   logging FALSE   logging_level INFO   load_libraries FALSE   libraries reshape2, plyr, tidyverse, stringr, lubridate   as_factors FALSE   tables_type tibble   attach_internal_libraries FALSE   cache_loaded_data TRUE   sticky_variables NONE   underscore_variables TRUE   cache_file_format RData   dummy 999   Configuration for project: test_projectdad535750924a   version 0.11.1   data_loading TRUE   data_loading_header TRUE   data_ignore   cache_loading TRUE   recursive_loading FALSE   munging TRUE   logging FALSE   logging_level INFO   load_libraries FALSE   libraries reshape2, plyr, tidyverse, stringr, lubridate   as_factors FALSE   tables_type tibble   attach_internal_libraries FALSE   cache_loaded_data TRUE   sticky_variables NONE   underscore_variables TRUE   cache_file_format RData      Additional custom config present for this project:   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad53208bf684   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: foo.reader.R    Running helper script: helpers.R   Autoloading data    Loading data set: example     Creating cache entry from global environment: example   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R     Creating cache entry from global environment: xxxx     Creating cache entry from global environment: xxxx     Creating cache entry from global environment: xxxx     Creating cache entry from global environment: cache.RData   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Following objects not in memory:   Objects to clear from memory: xxxx   Project name: test_projectdad537c9bf7d5   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: helper.function project.info   Clearing cache for project: test_projectdad537c9bf7d5   Clearing cache for project: test_projectdad536f2910ce   Objects to clear from memory: xxx   Project name: test_projectdad536f2910ce   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R     Creating cache entry from CODE: xxxx   Objects to clear from memory: config project.info   Objects to clear from memory: project.info   Objects to clear from memory: yyy   Following objects not in memory: xxx   Following objects not in memory: xxx   Variables not cleared: config   No objects to clear   Objects to clear from memory: .yyy helper.function project.info   Project name: test_projectdad53f250fa0   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad53f250fa0   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Configuration for project: test_projectdad531b02d4fd   Project name: test_projectdad5355579a75   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad53115d8eb1   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R      == Testing 1.R =================================================================      [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]   [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]   [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ] Done!      == Testing 1.R =================================================================      [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]   [ FAIL 0 | WARN 0 | SKIP 0 | PASS 0 ]   [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ] Done!   Current Directory: test_projectdad536e2bd776 is a ProjectTemplate directory   Cannot create a new project inside an existing one   Please change to another directory and re-run create.project()   Directory: test_projectdad536e2bd776 is a ProjectTemplate directory   Cannot create a new project inside an existing one   Please change to another directory and re-run create.project()   Directory: test_project2dad532fe8e7be is a ProjectTemplate directory   Cannot create a new project inside an existing one   Please change to another directory and re-run create.project()   Objects to clear from memory: config helper.function project.info   No objects to clear   Objects to clear from memory: config filedad532ce73287 helper.function project.info     Creating cache entry from CODE: test_data   Current Directory: test_projectdad535b299884 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Please change to correct directory and re-run load.project()      Current Directory: test_projectdad535b299884 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run clear.cache() again.      Current Directory: test_projectdad535b299884 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run cache() again.      Current Directory: test_projectdad535b299884 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run reload.project() again.      Current Directory: test_projectdad535b299884 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run test.project() again.      Current Directory: test_projectdad535b299884 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Change to a valid ProjectTemplate directory and run stub.tests() again.      Current Directory: test_projectdad535b299884 is not a valid ProjectTemplate directory because one or more mandatory directories are missing. If you believe you are in a ProjectTemplate directory and seeing this message in error, try running migrate.project(). migrate.project() will ensure the ProjectTemplate structure is consistent with your version of ProjectTemplate.   Please change to correct directory and re-run project.config()      Project name: test_projectdad53a71facc   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data    Loading data set: Thumbs   Loading required namespace: RSQLite     Creating cache entry from global environment: var_to_cache   Loading required package: data.table      Attaching package: 'data.table'      The following object is masked from 'package:base':          %notin%      Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.    version, data_loading_header, data_ignore, logging_level, tables_type, attach_internal_libraries, cache_loaded_data, sticky_variables, underscore_variables, cache_file_format      There is a new config item called cache_loaded_data which auto-caches data   after it has been loaded from the data directory. This has been switched   off for this project in case it breaks your scripts. However you can switch   it on manually by editing global.dcf      data_tables has been renamed tables_type. It can take the value 'tibble',   'data_table', or 'data_frame. If data_tables is TRUE, tables_type will be   set to 'data_table', otherwise the default 'data_frame' will be used. if you   wish a different default set it manually by editing global.dcf. Future new   projects will use 'tibble' by default.   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.    data_loading_header, data_ignore, logging_level, tables_type, attach_internal_libraries, cache_loaded_data, sticky_variables, underscore_variables, cache_file_format      There is a new config item called cache_loaded_data which auto-caches data   after it has been loaded from the data directory. This has been switched   off for this project in case it breaks your scripts. However you can switch   it on manually by editing global.dcf      data_tables has been renamed tables_type. It can take the value 'tibble',   'data_table', or 'data_frame. If data_tables is TRUE, tables_type will be   set to 'data_table', otherwise the default 'data_frame' will be used. if you   wish a different default set it manually by editing global.dcf. Future new   projects will use 'tibble' by default.   Migrating project configuration   [1] FALSE   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file was missing entries and defaults   have been used. The missing entries are:    cache_loaded_data   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file was missing entries and defaults   have been used. The missing entries are:   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file contained unused entries which have been   removed. The unused entries are:   Migrating project configuration   [1] FALSE   Migrating project configuration   [1] TRUE   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file was missing entries and defaults   have been used. The missing entries are:    tables_type   Migrating project configuration   [1] FALSE   Your existing project configuration in globals.dcf does not contain up to   date configuration settings in this version 0.11.1 of ProjectTemplate. They will   be added automatically during migration, but you should review afterward.   Your config.dcf file was missing entries and defaults   have been used. The missing entries are:    tables_type   Project name: test_projectdad532550b8f8   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: .Random.seed config helper.function project.info   Project name: test_projectdad5352fd9c70   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad5352fd9c70   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad535c8295da   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad535c8295da   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad5346b7a1c   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad5346b7a1c   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad533bfc695   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad536a3e9b48   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad536a3e9b48   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad531040c8da   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad531040c8da   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad5312e657ee   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad5312e657ee   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad533572de53   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad533572de53   Loading project configuration   Objects to clear from memory: config helper.function project.info   Project name: test_projectdad5321f51594   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad5321f51594   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info     Loading table: example_30a     Loading table: example_30b     Loading table: example_31a     Loading table: example_31b     Loading table: example_28   re-encoding from CP1252   re-encoding from CP1252   Objects to clear from memory: config helper.function project.info   Objects to clear from memory: config helper.function project.info   Items in cache will not be cleared   Use reload.project(reset=TRUE) to clear cache also   Objects to clear from memory: helper.function project.info z   Reloading Project ...   Project name: test_projectdad53768eaa34   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data    Loading cached data set: z   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Objects to clear from memory: config helper.function project.info x y z   Project name: test_projectdad532d6ffccb   Loading project configuration   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad5328f49866   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   Project name: test_projectdad535a13dbef   Loading project configuration   Autoloading helper functions    Running helper script: globals.R    Running helper script: helpers.R   Autoloading data    Loading data set: file_not_in_full_template    Translating data.frame to tibble: file_not_in_full_template     Creating cache entry from global environment: file_not_in_full_template   Munging data    Running preprocessing script: 01-A.R    Sourcing R script: 01-A.R   [1] FALSE   [ FAIL 1 | WARN 214 | SKIP 0 | PASS 870 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-load.R:473:3'): pass munge files to run ────────────────────────   <Rcpp::exception/C++Error/error/condition>   Error: /tmp/check-CRAN-regular-hornik/cache/R/reticulate/uv/python/cpython-3.12.13-linux-x86_64-gnu/lib/libpython3.12.so - /tmp/check-CRAN-regular-hornik/cache/R/reticulate/uv/python/cpython-3.12.13-linux-x86_64-gnu/lib/libpython3.12.so: cannot enable executable stack as shared object requires: Invalid argument   Backtrace:        ▆     1. ├─base::suppressMessages(load.project()) at test-load.R:473:3     2. │ └─base::withCallingHandlers(...)     3. └─ProjectTemplate::load.project()     4. └─ProjectTemplate:::.munge.data(config, my.project.info)     5. └─reticulate::source_python(file.path(dir_name, preprocessing.script))     6. └─reticulate::py_run_file(file, local = FALSE, convert = convert)     7. └─reticulate:::ensure_python_initialized()     8. └─reticulate:::initialize_python()     9. └─base::tryCatch(...)    10. └─base (local) tryCatchList(expr, classes, parentenv, handlers)    11. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])    12. └─value[[3L]](cond)      [ FAIL 1 | WARN 214 | SKIP 0 | PASS 870 ]   Error:   ! Test failures.   Execution halted
• checking PDF version of manual ... [5s/9s] OK
• checking HTML version of manual ... [2s/4s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 ERROR, 1 NOTE