fwildclusterboot submission #546
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Thanks for submitting to rOpenSci, our editors and @ropensci-review-bot will reply soon. Type |
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Error (500). The editorcheck service is currently unavailable |
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Thanks, about to send the query. |
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Error (500). The editorcheck service is currently unavailable |
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Hi @emilyriederer, is it possible that the editor check bot fails because I have submitted the package via a side-branch? @mpadge mentioned in the pre-submission that some of the automated tools might fail in this case, but suggested to nevertheless submit via a non default branch for testing purposes. |
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Looks like @mpadge beat me to this but it appears we have our answer. Marc, I assume we shall wait to proceed until this issue is closed? Thanks! |
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Thanks @emilyriederer, because of this submission we now have an ability to process packages with non-default review branches. You (or indeed @s3alfisc) may call |
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Thanks @mpadge - it looks like I have some work to do :) I will trigger |
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Checks for fwildclusterboot (v0.10)git hash: 274030f8
Important: All failing checks above must be addressed prior to proceeding Package License: GPL-3 1. rOpenSci Statistical Standards (
|
| type | package | ncalls |
|---|---|---|
| internal | base | 385 |
| internal | fwildclusterboot | 104 |
| internal | stats | 80 |
| internal | utils | 8 |
| internal | graphics | 3 |
| internal | compiler | 1 |
| imports | collapse | 14 |
| imports | dreamerr | 10 |
| imports | generics | 5 |
| imports | dqrng | 5 |
| imports | Matrix | 3 |
| imports | Matrix.utils | 3 |
| imports | JuliaConnectoR | 1 |
| imports | Formula | NA |
| imports | Rcpp | NA |
| suggests | fabricatr | 6 |
| suggests | fixest | NA |
| suggests | lfe | NA |
| suggests | ivreg | NA |
| suggests | clubSandwich | NA |
| suggests | sandwich | NA |
| suggests | lmtest | NA |
| suggests | data.table | NA |
| suggests | covr | NA |
| suggests | knitr | NA |
| suggests | rmarkdown | NA |
| suggests | broom | NA |
| suggests | modelsummary | NA |
| suggests | bench | NA |
| suggests | testthat | NA |
| suggests | tibble | NA |
| linking_to | Rcpp | NA |
| linking_to | RcppArmadillo | NA |
| linking_to | RcppEigen | NA |
Click below for tallies of functions used in each package. Locations of each call within this package may be generated locally by running 's <- pkgstats::pkgstats(<path/to/repo>)', and examining the 'external_calls' table.
base
length (36), call (31), list (28), c (16), lapply (13), vapply (13), as.vector (11), names (11), t (11), drop (10), stop (10), unique (10), rep (9), ifelse (8), paste0 (8), data.frame (7), match.call (7), which (7), as.matrix (6), ncol (6), nrow (6), replace (6), sqrt (6), mode (5), seq_along (5), vector (5), as.numeric (4), for (4), is.null (4), mean (4), Reduce (4), sample (4), sum (4), switch (4), tcrossprod (4), abs (3), col (3), colnames (3), environment (3), q (3), as.integer (2), attr (2), crossprod (2), getOption (2), if (2), loadedNamespaces (2), min (2), norm (2), paste (2), Recall (2), solve (2), suppressWarnings (2), append (1), as.character (1), as.factor (1), cbind (1), class (1), do.call (1), exp (1), integer (1), is.na (1), is.numeric (1), logical (1), max (1), message (1), sample.int (1), seq (1), sort (1), Sys.getenv (1), try (1), unlist (1)
fwildclusterboot
get_ssc_julia (8), check_set_full_enumeration (7), set_seed (7), teststat (6), boot_algo_julia (5), crosstab (4), get_cluster (4), model_matrix (4), boot_algo2 (3), cpp_get_nb_threads (3), eigenMapMatMult (3), get_bootstrap_pvalue (3), get_ssc (3), demean_fe (2), gtools_permutations (2), preprocess2.felm (2), preprocess2.fixest (2), preprocess2.lm (2), transform_fe (2), boottest (1), boottest.felm (1), boottest.fixest (1), boottest.ivreg (1), boottest.lm (1), check_boottest_args_plus (1), check_mboottest_args_plus (1), check_params_in_model (1), check_r_lean (1), check_set_nthreads (1), confint.boottest (1), crosstab4 (1), get_seed (1), get_start_vals (1), getBoottest_boot_algo (1), getBoottest_nthreads (1), glance.boottest (1), invert_p_val (1), mboottest (1), mboottest.felm (1), mboottest.fixest (1), mboottest.lm (1), model_matrix.felm (1), model_matrix.lm (1), nobs.boottest (1), nobs.mboottest (1), p_val_null2 (1), p_val_null2_x (1), p_val_null2_x_sign_level (1), preprocess2.ivreg (1), to_integer (1), wildboottestHC (1)
stats
weights (24), model.matrix (12), formula (8), coef (6), na.omit (6), model.frame (5), nobs (4), aggregate (3), model.response (3), na.exclude (3), reformulate (2), na.action (1), na.pass (1), rlnorm (1), update (1)
collapse
fsum (7), GRP (4), qF (3)
dreamerr
validate_dots (10)
utils
data (7), combn (1)
fabricatr
draw_binary (2), draw_normal_icc (2), draw_ordered (1), fabricate (1)
dqrng
dqsample (4), dqset.seed (1)
generics
tidy (4), glance (1)
graphics
abline (3)
Matrix
t (2), Diagonal (1)
Matrix.utils
aggregate.Matrix (3)
compiler
cmpfun (1)
JuliaConnectoR
juliaImport (1)
NOTE: Some imported packages appear to have no associated function calls; please ensure with author that these 'Imports' are listed appropriately.
3. Statistical Properties
This package features some noteworthy statistical properties which may need to be clarified by a handling editor prior to progressing.
Details of statistical properties (click to open)
The package has:
- code in C++ (8% in 2 files) and R (92% in 28 files)
- 2 authors
- 2 vignettes
- 1 internal data file
- 9 imported packages
- 33 exported functions (median 8 lines of code)
- 121 non-exported functions in R (median 26 lines of code)
- 13 R functions (median 17 lines of code)
Statistical properties of package structure as distributional percentiles in relation to all current CRAN packages
The following terminology is used:
loc= "Lines of Code"fn= "function"exp/not_exp= exported / not exported
All parameters are explained as tooltips in the locally-rendered HTML version of this report generated by the checks_to_markdown() function
The final measure (fn_call_network_size) is the total number of calls between functions (in R), or more abstract relationships between code objects in other languages. Values are flagged as "noteworthy" when they lie in the upper or lower 5th percentile.
| measure | value | percentile | noteworthy |
|---|---|---|---|
| files_R | 28 | 88.2 | |
| files_src | 2 | 79.1 | |
| files_vignettes | 2 | 85.7 | |
| files_tests | 17 | 95.3 | |
| loc_R | 3873 | 93.2 | |
| loc_src | 325 | 37.1 | |
| loc_vignettes | 436 | 74.7 | |
| loc_tests | 5291 | 98.3 | TRUE |
| num_vignettes | 2 | 89.2 | |
| data_size_total | 14024 | 72.7 | |
| data_size_median | 14024 | 81.0 | |
| n_fns_r | 154 | 85.7 | |
| n_fns_r_exported | 33 | 80.4 | |
| n_fns_r_not_exported | 121 | 87.1 | |
| n_fns_src | 13 | 35.0 | |
| n_fns_per_file_r | 3 | 55.2 | |
| n_fns_per_file_src | 6 | 61.3 | |
| num_params_per_fn | 2 | 11.9 | |
| loc_per_fn_r | 23 | 66.0 | |
| loc_per_fn_r_exp | 8 | 16.3 | |
| loc_per_fn_r_not_exp | 26 | 73.5 | |
| loc_per_fn_src | 17 | 59.6 | |
| rel_whitespace_R | 18 | 92.7 | |
| rel_whitespace_src | 30 | 48.8 | |
| rel_whitespace_vignettes | 43 | 83.2 | |
| rel_whitespace_tests | 11 | 96.1 | TRUE |
| doclines_per_fn_exp | 29 | 31.0 | |
| doclines_per_fn_not_exp | 0 | 0.0 | TRUE |
| fn_call_network_size | 132 | 83.4 |
3a. Network visualisation
Click to see the interactive network visualisation of calls between objects in package
4. goodpractice and other checks
Details of goodpractice checks (click to open)
3a. Continuous Integration Badges
GitHub Workflow Results
| id | name | conclusion | sha | run_number | date |
|---|---|---|---|---|---|
| 2828472276 | pages build and deployment | success | b71a32 | 155 | 2022-08-09 |
| 2827237407 | pkgcheck | failure | 274030 | 24 | 2022-08-09 |
| 2862000970 | pkgdown | failure | 85eba8 | 101 | 2022-08-15 |
| 2862000975 | R-CMD-check | failure | 85eba8 | 458 | 2022-08-15 |
| 2862000968 | test-coverage | failure | 85eba8 | 435 | 2022-08-15 |
3b. goodpractice results
R CMD check with rcmdcheck
R CMD check generated the following error:
- checking tests ...
Running ‘testthat.R’
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
▆- ├─fwildclusterboot::boottest(...) at test_fixest_sugar.R:44:2
- └─fwildclusterboot:::boottest.fixest(...)
- └─fwildclusterboot:::preprocess2.fixest(...)
-
└─fwildclusterboot:::get_cluster(...) -
├─stats::model.frame(clustid_fml, cluster_tmp, na.action = na.pass) -
└─stats::model.frame.default(clustid_fml, cluster_tmp, na.action = na.pass) -
├─base::as.data.frame(data) -
└─base::as.data.frame.default(data)
── Error (test_multicollinearity.R:16:3): test multicollinearity ───────────────
Error in feols(Y ~ X1 + X2, data = data): could not find function "feols"
[ FAIL 2 | WARN 4 | SKIP 15 | PASS 59 ]
Error: Test failures
Execution halted
R CMD check generated the following notes:
- checking installed package size ... NOTE
installed size is 7.0Mb
sub-directories of 1Mb or more:
libs 5.9Mb - checking R code for possible problems ... NOTE
mboottest.lm: no visible binding for global variable ‘teststat_boot’
Undefined global functions or variables:
teststat_boot
R CMD check generated the following test_fail:
-
library(testthat)
library(fwildclusterboot)
test_check("fwildclusterboot")
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
Error in i(treatment, ideology1) : could not find function "i"
test_tidy.R, q = 1 skipped as 'JULIA_BINDIR' not found.
test_tidy.R, q > 1 skipped as 'JULIA_BINDIR' not found.
Loading required namespace: data.table
test-error_warning.R with q = 1 skipped as JULIA_BINDIR not found.
test-error_warning.R with q > 1 skipped as JULIA_BINDIR not found.
Loading required package: Matrix
Error in post1 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | 0 | 0 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | Utility_state :
operations are possible only for numeric, logical or complex types
Error in post1 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | 0 | 0 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | Utility_state :
operations are possible only for numeric, logical or complex types
Error in post1 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | 0 | 0 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | Utility_state :
operations are possible only for numeric, logical or complex types
test-global_vars.R skipped as JULIA_BINDR not found.
test-method_equivalence.R I skipped as JULIA_BINDR not found.
test-method_equivalence.R II skipped as JULIA_BINDR not found.
test-r-vs-julia.R skipped as JULIA_BINDIR not found.
test-seed.R skipped as JULIA_BINDR not found.
test-tstat_equivalence.R I skipped as JULIA_BINDR not found.
test-tstat_equivalence.R II skipped as JULIA_BINDR not found.
test-stat_equivalence.R III skipped as JULIA_BINDR not found.
Error in Q1_immigration + Q2_defense :
non-numeric argument to binary operator
Error in Q1_immigration + Q2_defense :
non-numeric argument to binary operator
[ FAIL 2 | WARN 4 | SKIP 15 | PASS 59 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• empty test (15)
══ Warnings ════════════════════════════════════════════════════════════════════
── Warning (test-uncategorized.R:44:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see Webb Reworking wild bootstrap based inference for clustered errors (2013).
Backtrace:
- fwildclusterboot::boottest(...)
at test-uncategorized.R:44:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:52:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:52:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:60:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:60:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:68:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:68:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test_fixest_sugar.R:44:3): test fixest formula sugar ─────────────────
Error in as.data.frame.default(data): cannot coerce class '"try-error"' to a data.frame
Backtrace:
▆
- ├─fwildclusterboot::boottest(...) at test_fixest_sugar.R:44:2
- └─fwildclusterboot:::boottest.fixest(...)
- └─fwildclusterboot:::preprocess2.fixest(...)
-
└─fwildclusterboot:::get_cluster(...) -
├─stats::model.frame(clustid_fml, cluster_tmp, na.action = na.pass) -
└─stats::model.frame.default(clustid_fml, cluster_tmp, na.action = na.pass) -
├─base::as.data.frame(data) -
└─base::as.data.frame.default(data)
── Error (test_multicollinearity.R:16:3): test multicollinearity ───────────────
Error in feols(Y ~ X1 + X2, data = data): could not find function "feols"
[ FAIL 2 | WARN 4 | SKIP 15 | PASS 59 ]
Error: Test failures
Execution halted
R CMD check generated the following check_fails:
- rcmdcheck_undefined_globals
- rcmdcheck_tests_pass
- rcmdcheck_reasonable_installed_size
Test coverage with covr
ERROR: Test Coverage Failed
Cyclocomplexity with cyclocomp
The following functions have cyclocomplexity >= 15:
| function | cyclocomplexity |
|---|---|
| get_cluster | 45 |
| gtools_permutations | 34 |
| boot_algo_julia | 20 |
| boot_algo2 | 17 |
| getBoottest_nthreads | 16 |
| check_boottest_args_plus | 15 |
Static code analyses with lintr
lintr found the following 35 potential issues:
| message | number of times |
|---|---|
| Avoid library() and require() calls in packages | 12 |
| Lines should not be more than 80 characters. | 23 |
5. Other Checks
Details of other checks (click to open)
✖️ The following 2 function names are duplicated in other packages:
-
model_matrixfrom bayesbr, hardhat, mcmcsae, modelr, ZIprop
-
pvalfrom CIPerm, dostats, dostats, GUIDE, learnstats, molic, mosaic, overlapptest, RPtests, timereg
Package Versions
| package | version |
|---|---|
| pkgstats | 0.1.1.20 |
| pkgcheck | 0.1.0.3 |
| srr | 0.0.1.176 |
Editor-in-Chief Instructions:
Processing may not proceed until the items marked with ✖️ have been resolved.
|
Hi, I wanted to give some feedback on the state of the package:
|
|
@ropensci-review-bot check package |
|
Thanks, about to send the query. |
|
🚀 Editor check started 👋 |
Checks for fwildclusterboot (v0.11)git hash: 00c38b8d
Important: All failing checks above must be addressed prior to proceeding Package License: GPL-3 1. rOpenSci Statistical Standards (
|
| type | package | ncalls |
|---|---|---|
| internal | base | 441 |
| internal | fwildclusterboot | 113 |
| internal | stats | 83 |
| internal | utils | 8 |
| internal | graphics | 3 |
| internal | compiler | 1 |
| imports | collapse | 14 |
| imports | dreamerr | 10 |
| imports | generics | 5 |
| imports | dqrng | 5 |
| imports | MASS | 4 |
| imports | Matrix | 3 |
| imports | Matrix.utils | 3 |
| imports | JuliaConnectoR | 1 |
| imports | summclust | 1 |
| imports | sandwich | 1 |
| imports | Formula | NA |
| imports | Rcpp | NA |
| suggests | fabricatr | 6 |
| suggests | fixest | NA |
| suggests | lfe | NA |
| suggests | ivreg | NA |
| suggests | clubSandwich | NA |
| suggests | lmtest | NA |
| suggests | data.table | NA |
| suggests | covr | NA |
| suggests | knitr | NA |
| suggests | rmarkdown | NA |
| suggests | broom | NA |
| suggests | modelsummary | NA |
| suggests | bench | NA |
| suggests | testthat | NA |
| suggests | tibble | NA |
| linking_to | Rcpp | NA |
| linking_to | RcppArmadillo | NA |
| linking_to | RcppEigen | NA |
Click below for tallies of functions used in each package. Locations of each call within this package may be generated locally by running 's <- pkgstats::pkgstats(<path/to/repo>)', and examining the 'external_calls' table.
base
length (40), call (31), list (30), lapply (20), c (16), t (15), vapply (13), as.vector (12), drop (12), names (12), unique (12), stop (10), ifelse (9), Reduce (9), rep (9), paste0 (8), which (8), data.frame (7), match.call (7), mode (7), nrow (7), sqrt (7), vector (7), as.matrix (6), for (6), ncol (6), replace (6), switch (6), seq_along (5), as.numeric (4), crossprod (4), is.null (4), mean (4), sample (4), solve (4), sum (4), tcrossprod (4), abs (3), col (3), colnames (3), environment (3), q (3), as.factor (2), as.integer (2), attr (2), dim (2), getOption (2), if (2), loadedNamespaces (2), matrix (2), min (2), norm (2), paste (2), Recall (2), split (2), suppressWarnings (2), append (1), as.character (1), cbind (1), class (1), colSums (1), diag (1), do.call (1), eval (1), exp (1), integer (1), is.na (1), is.numeric (1), logical (1), max (1), message (1), row (1), sample.int (1), seq (1), sort (1), Sys.getenv (1), try (1), tryCatch (1), unlist (1)
fwildclusterboot
get_ssc_julia (8), check_set_full_enumeration (7), set_seed (7), teststat (6), boot_algo_julia (5), crosstab (4), get_bootstrap_pvalue (4), get_cluster (4), model_matrix (4), boot_algo2 (3), cpp_get_nb_threads (3), eigenMapMatMult (3), get_ssc (3), get_weights (3), matrix_split (3), demean_fe (2), get_scores (2), gtools_permutations (2), preprocess2.felm (2), preprocess2.fixest (2), preprocess2.lm (2), transform_fe (2), boot_algo3 (1), boottest (1), boottest.felm (1), boottest.fixest (1), boottest.ivreg (1), boottest.lm (1), check_boot_algo3 (1), check_boottest_args_plus (1), check_mboottest_args_plus (1), check_params_in_model (1), check_r_lean (1), check_set_nthreads (1), confint.boottest (1), crosstab4 (1), get_seed (1), get_start_vals (1), getBoottest_boot_algo (1), getBoottest_nthreads (1), glance.boottest (1), invert_p_val (1), is_juliaconnector_prepared (1), mboottest (1), mboottest.felm (1), mboottest.fixest (1), mboottest.lm (1), model_matrix.felm (1), p_val_null2 (1), p_val_null2_x (1), p_val_null2_x_sign_level (1), preprocess2.ivreg (1), to_integer (1), wildboottestHC (1)
stats
weights (25), model.matrix (12), formula (8), coef (6), na.omit (6), model.frame (5), nobs (4), aggregate (3), model.response (3), na.exclude (3), reformulate (2), vcov (2), na.action (1), na.pass (1), rlnorm (1), update (1)
collapse
fsum (7), GRP (4), qF (3)
dreamerr
validate_dots (10)
utils
data (7), combn (1)
fabricatr
draw_binary (2), draw_normal_icc (2), draw_ordered (1), fabricate (1)
dqrng
dqsample (4), dqset.seed (1)
generics
tidy (4), glance (1)
MASS
ginv (4)
graphics
abline (3)
Matrix
t (2), Diagonal (1)
Matrix.utils
aggregate.Matrix (3)
compiler
cmpfun (1)
JuliaConnectoR
juliaImport (1)
sandwich
vcovCL (1)
summclust
vcov_CR3J (1)
NOTE: Some imported packages appear to have no associated function calls; please ensure with author that these 'Imports' are listed appropriately.
3. Statistical Properties
This package features some noteworthy statistical properties which may need to be clarified by a handling editor prior to progressing.
Details of statistical properties (click to open)
The package has:
- code in C++ (7% in 3 files) and R (93% in 32 files)
- 2 authors
- 3 vignettes
- 1 internal data file
- 12 imported packages
- 28 exported functions (median 9 lines of code)
- 140 non-exported functions in R (median 24 lines of code)
- 14 R functions (median 14 lines of code)
Statistical properties of package structure as distributional percentiles in relation to all current CRAN packages
The following terminology is used:
loc= "Lines of Code"fn= "function"exp/not_exp= exported / not exported
All parameters are explained as tooltips in the locally-rendered HTML version of this report generated by the checks_to_markdown() function
The final measure (fn_call_network_size) is the total number of calls between functions (in R), or more abstract relationships between code objects in other languages. Values are flagged as "noteworthy" when they lie in the upper or lower 5th percentile.
| measure | value | percentile | noteworthy |
|---|---|---|---|
| files_R | 32 | 90.5 | |
| files_src | 3 | 84.3 | |
| files_vignettes | 3 | 92.4 | |
| files_tests | 17 | 95.3 | |
| loc_R | 4252 | 94.1 | |
| loc_src | 341 | 37.9 | |
| loc_vignettes | 496 | 77.9 | |
| loc_tests | 5516 | 98.5 | TRUE |
| num_vignettes | 3 | 94.2 | |
| data_size_total | 14024 | 72.7 | |
| data_size_median | 14024 | 81.0 | |
| n_fns_r | 168 | 87.0 | |
| n_fns_r_exported | 28 | 76.4 | |
| n_fns_r_not_exported | 140 | 89.2 | |
| n_fns_src | 14 | 36.7 | |
| n_fns_per_file_r | 3 | 53.1 | |
| n_fns_per_file_src | 5 | 47.8 | |
| num_params_per_fn | 2 | 11.9 | |
| loc_per_fn_r | 23 | 66.0 | |
| loc_per_fn_r_exp | 9 | 19.2 | |
| loc_per_fn_r_not_exp | 24 | 70.4 | |
| loc_per_fn_src | 14 | 46.6 | |
| rel_whitespace_R | 19 | 94.1 | |
| rel_whitespace_src | 33 | 52.2 | |
| rel_whitespace_vignettes | 41 | 84.9 | |
| rel_whitespace_tests | 12 | 96.6 | TRUE |
| doclines_per_fn_exp | 30 | 32.9 | |
| doclines_per_fn_not_exp | 0 | 0.0 | TRUE |
| fn_call_network_size | 141 | 84.4 |
3a. Network visualisation
Click to see the interactive network visualisation of calls between objects in package
4. goodpractice and other checks
Details of goodpractice checks (click to open)
3a. Continuous Integration Badges
GitHub Workflow Results
| id | name | conclusion | sha | run_number | date |
|---|---|---|---|---|---|
| 2899111163 | pages build and deployment | success | de3182 | 176 | 2022-08-21 |
| 2921823435 | pkgcheck | failure | 00c38b | 41 | 2022-08-24 |
| 2899087820 | pkgdown | success | aba1d7 | 124 | 2022-08-21 |
| 2921823433 | R-CMD-check | success | 00c38b | 484 | 2022-08-24 |
| 2899015892 | test-coverage | success | aba1d7 | 457 | 2022-08-21 |
3b. goodpractice results
R CMD check with rcmdcheck
R CMD check generated the following error:
- checking tests ...
Running ‘testthat.R’
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:- ├─fwildclusterboot::boottest(...) at test-new-bootstrap-variants.R:243:2
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::boot_algo_julia(...)
-
└─JuliaConnectoR::juliaEval("using WildBootTests") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
[ FAIL 1 | WARN 6 | SKIP 14 | PASS 75 ]
Error: Test failures
Execution halted
R CMD check generated the following notes:
- checking installed package size ... NOTE
installed size is 7.5Mb
sub-directories of 1Mb or more:
libs 6.5Mb - checking R code for possible problems ... NOTE
boot_algo3: no visible binding for '<<-' assignment to ‘beta_2g_tilde’
R CMD check generated the following test_fail:
-
library(testthat)
library(fwildclusterboot)
test_check("fwildclusterboot")
Loading required namespace: fixest
The variable 'X2' has been removed because of collinearity (see $collin.var).
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test_tidy.R, q = 1 skipped as 'JULIA_BINDIR' not found.
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test_tidy.R, q > 1 skipped as 'JULIA_BINDIR' not found.
Loading required namespace: data.table
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-error_warning.R with q = 1 skipped as JULIA_BINDIR not found.
Loading required namespace: ivreg
Loading required namespace: clubSandwich
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-error_warning.R with q > 1 skipped as JULIA_BINDIR not found.
Error in post1 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | 0 | 0 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | Utility_state :
operations are possible only for numeric, logical or complex types
Error in post1 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | 0 | 0 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | Utility_state :
operations are possible only for numeric, logical or complex types
Error in post1 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | 0 | 0 | SEclusters :
operations are possible only for numeric, logical or complex types
Error in post1 | Utility_state :
operations are possible only for numeric, logical or complex types
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-global_vars.R skipped as JULIA_BINDR not found.
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-method_equivalence.R I skipped as JULIA_BINDR not found.
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-method_equivalence.R II skipped as JULIA_BINDR not found.
Starting Julia ...
test-r-vs-julia.R skipped as JULIA_BINDIR not found.
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-seed.R skipped as JULIA_BINDR not found.
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-tstat_equivalence.R I skipped as JULIA_BINDR not found.
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-tstat_equivalence.R II skipped as JULIA_BINDR not found.
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
test-stat_equivalence.R III skipped as JULIA_BINDR not found.
Error in Q1_immigration + Q2_defense :
non-numeric argument to binary operator
Error in Q1_immigration + Q2_defense :
non-numeric argument to binary operator
[ FAIL 1 | WARN 6 | SKIP 14 | PASS 75 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• empty test (14)
══ Warnings ════════════════════════════════════════════════════════════════════
── Warning (test_multicollinearity.R:17:3): test multicollinearity ─────────────
the matrix is either rank-deficient or indefinite
Backtrace:
- lfe::felm(Y ~ X1 + X2, data = data)
at test_multicollinearity.R:17:2 - lfe:::felm.mm(...)
- lfe:::newols(...)
- lfe:::cholx(cp)
- base::chol.default(mat, pivot = TRUE, tol = tol)
── Warning (test-new-bootstrap-variants.R:243:3): variants 31 R vs Julia ───────
There are only 1024 unique draws from the rademacher distribution for 10 bootstrap clusters. Therefore, B = 1024 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 1024 bootstrap draws, only 2^(#clusters - 1) = 512 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-new-bootstrap-variants.R:243:2 - fwildclusterboot:::boottest.lm(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:45:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:45:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:53:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:53:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:61:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:61:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:69:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:69:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test-new-bootstrap-variants.R:243:3): variants 31 R vs Julia ─────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package WildBootTests not found in current path.
- Run
import Pkg; Pkg.add("WildBootTests")to install the WildBootTests package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─fwildclusterboot::boottest(...) at test-new-bootstrap-variants.R:243:2
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::boot_algo_julia(...)
-
└─JuliaConnectoR::juliaEval("using WildBootTests") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
-
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
[ FAIL 1 | WARN 6 | SKIP 14 | PASS 75 ]
Error: Test failures
Execution halted
R CMD check generated the following check_fails:
- rcmdcheck_tests_pass
- rcmdcheck_reasonable_installed_size
Test coverage with covr
ERROR: Test Coverage Failed
Cyclocomplexity with cyclocomp
The following functions have cyclocomplexity >= 15:
| function | cyclocomplexity |
|---|---|
| get_cluster | 45 |
| gtools_permutations | 34 |
| boot_algo3 | 23 |
| boot_algo_julia | 21 |
| getBoottest_nthreads | 16 |
| check_boottest_args_plus | 15 |
Static code analyses with lintr
lintr found the following 33 potential issues:
| message | number of times |
|---|---|
| Avoid library() and require() calls in packages | 13 |
| Lines should not be more than 80 characters. | 20 |
5. Other Checks
Details of other checks (click to open)
✖️ The following function name is duplicated in other packages:
-
pvalfrom CIPerm, dostats, dostats, GUIDE, learnstats, molic, mosaic, overlapptest, RPtests, timereg
Package Versions
| package | version |
|---|---|
| pkgstats | 0.1.1.20 |
| pkgcheck | 0.1.0.9 |
| srr | 0.0.1.178 |
Editor-in-Chief Instructions:
Processing may not proceed until the items marked with ✖️ have been resolved.
|
I just ran the |
|
@ropensci-review-bot check package |
|
Thanks, about to send the query. |
|
🚀 Editor check started 👋 |
Checks for fwildclusterboot (v0.11.2)git hash: 94019e7e
Important: All failing checks above must be addressed prior to proceeding (Checks marked with 👀 may be optionally addressed.) Package License: GPL-3 1. rOpenSci Statistical Standards (
|
| type | package | ncalls |
|---|---|---|
| internal | base | 516 |
| internal | fwildclusterboot | 128 |
| internal | stats | 84 |
| internal | utils | 9 |
| internal | graphics | 3 |
| internal | compiler | 1 |
| imports | collapse | 14 |
| imports | dreamerr | 10 |
| imports | generics | 5 |
| imports | dqrng | 5 |
| imports | MASS | 4 |
| imports | Matrix | 3 |
| imports | Matrix.utils | 3 |
| imports | JuliaConnectoR | 1 |
| imports | summclust | 1 |
| imports | sandwich | 1 |
| imports | Formula | NA |
| imports | Rcpp | NA |
| suggests | fabricatr | 6 |
| suggests | fixest | NA |
| suggests | lfe | NA |
| suggests | ivreg | NA |
| suggests | clubSandwich | NA |
| suggests | lmtest | NA |
| suggests | data.table | NA |
| suggests | covr | NA |
| suggests | knitr | NA |
| suggests | rmarkdown | NA |
| suggests | broom | NA |
| suggests | modelsummary | NA |
| suggests | bench | NA |
| suggests | testthat | NA |
| suggests | tibble | NA |
| suggests | did2s | NA |
| linking_to | Rcpp | NA |
| linking_to | RcppArmadillo | NA |
| linking_to | RcppEigen | NA |
Click below for tallies of functions used in each package. Locations of each call within this package may be generated locally by running 's <- pkgstats::pkgstats(<path/to/repo>)', and examining the 'external_calls' table.
base
length (44), list (34), call (31), c (22), lapply (22), names (18), t (15), unique (15), drop (13), vapply (13), as.vector (12), paste0 (12), data.frame (10), rep (10), stop (10), ifelse (9), mode (9), Reduce (9), vector (9), which (9), for (8), nrow (8), sqrt (8), match.call (7), as.matrix (6), ncol (6), replace (6), sum (6), switch (6), is.null (5), matrix (5), seq_along (5), as.numeric (4), crossprod (4), gsub (4), mean (4), sample (4), solve (4), tcrossprod (4), abs (3), col (3), colnames (3), colSums (3), environment (3), getOption (3), if (3), min (3), paste (3), q (3), unlist (3), as.factor (2), as.integer (2), attr (2), cbind (2), grepl (2), loadedNamespaces (2), max (2), norm (2), Recall (2), return (2), sign (2), split (2), sprintf (2), substr (2), suppressWarnings (2), Sys.getenv (2), append (1), as.character (1), class (1), diag (1), dim (1), do.call (1), eval (1), exp (1), integer (1), is.na (1), is.numeric (1), isTRUE (1), logical (1), message (1), nchar (1), row (1), sample.int (1), sapply (1), seq (1), sort (1), tryCatch (1)
fwildclusterboot
format_message (8), get_ssc_julia (8), check_set_full_enumeration (7), set_seed (7), teststat (6), boot_algo_julia (5), crosstab (4), get_bootstrap_pvalue (4), get_cluster (4), boot_algo2 (3), cpp_get_nb_threads (3), eigenMapMatMult (3), get_ssc (3), get_weights (3), model_matrix (3), process_R (3), boottest (2), demean_fe (2), get_scores (2), gtools_permutations (2), matrix_split (2), preprocess2.felm (2), preprocess2.fixest (2), preprocess2.lm (2), transform_fe (2), boot_aggregate (1), boot_algo3 (1), boot_algo3_crv1 (1), boot_algo3_crv3 (1), boottest.felm (1), boottest.fixest (1), boottest.ivreg (1), boottest.lm (1), check_boot_algo3 (1), check_boottest_args_plus (1), check_engine_btype (1), check_mboottest_args_plus (1), check_params_in_model (1), check_r_lean (1), check_set_nthreads (1), confint.boottest (1), crosstab4 (1), format_alert (1), format_error (1), format_warning (1), get_c_all_boot_cpp (1), get_se_all_boot_cpp (1), get_seed (1), get_start_vals (1), getBoottest_engine (1), getBoottest_nthreads (1), glance.boottest (1), invert_p_val (1), is_juliaconnector_prepared (1), manipulate_object (1), p_val_null2 (1), p_val_null2_x (1), p_val_null2_x_sign_level (1), preprocess2.ivreg (1), to_integer (1), wildboottestHC (1)
stats
weights (24), model.matrix (13), formula (8), coef (7), na.omit (6), model.frame (5), nobs (4), aggregate (3), model.response (3), na.exclude (3), reformulate (2), vcov (2), na.action (1), na.pass (1), rlnorm (1), update (1)
collapse
fsum (7), GRP (4), qF (3)
dreamerr
validate_dots (10)
utils
data (7), combn (1), txtProgressBar (1)
fabricatr
draw_binary (2), draw_normal_icc (2), draw_ordered (1), fabricate (1)
dqrng
dqsample (4), dqset.seed (1)
generics
tidy (4), glance (1)
MASS
ginv (4)
graphics
abline (3)
Matrix
t (2), Diagonal (1)
Matrix.utils
aggregate.Matrix (3)
compiler
cmpfun (1)
JuliaConnectoR
juliaImport (1)
sandwich
vcovCL (1)
summclust
vcov_CR3J (1)
NOTE: Some imported packages appear to have no associated function calls; please ensure with author that these 'Imports' are listed appropriately.
3. Statistical Properties
This package features some noteworthy statistical properties which may need to be clarified by a handling editor prior to progressing.
Details of statistical properties (click to open)
The package has:
- code in C++ (10% in 4 files) and R (90% in 34 files)
- 2 authors
- 3 vignettes
- 1 internal data file
- 12 imported packages
- 34 exported functions (median 9 lines of code)
- 168 non-exported functions in R (median 20 lines of code)
- 21 R functions (median 17 lines of code)
Statistical properties of package structure as distributional percentiles in relation to all current CRAN packages
The following terminology is used:
loc= "Lines of Code"fn= "function"exp/not_exp= exported / not exported
All parameters are explained as tooltips in the locally-rendered HTML version of this report generated by the checks_to_markdown() function
The final measure (fn_call_network_size) is the total number of calls between functions (in R), or more abstract relationships between code objects in other languages. Values are flagged as "noteworthy" when they lie in the upper or lower 5th percentile.
| measure | value | percentile | noteworthy |
|---|---|---|---|
| files_R | 34 | 91.4 | |
| files_src | 4 | 87.0 | |
| files_vignettes | 3 | 92.4 | |
| files_tests | 18 | 95.7 | |
| loc_R | 4677 | 94.8 | |
| loc_src | 500 | 46.8 | |
| loc_vignettes | 586 | 81.7 | |
| loc_tests | 5821 | 98.6 | TRUE |
| num_vignettes | 3 | 94.2 | |
| data_size_total | 14024 | 72.7 | |
| data_size_median | 14024 | 81.0 | |
| n_fns_r | 202 | 89.9 | |
| n_fns_r_exported | 34 | 81.0 | |
| n_fns_r_not_exported | 168 | 91.5 | |
| n_fns_src | 21 | 47.2 | |
| n_fns_per_file_r | 3 | 55.2 | |
| n_fns_per_file_src | 5 | 53.2 | |
| num_params_per_fn | 2 | 11.9 | |
| loc_per_fn_r | 18 | 54.7 | |
| loc_per_fn_r_exp | 9 | 19.2 | |
| loc_per_fn_r_not_exp | 20 | 63.0 | |
| loc_per_fn_src | 17 | 59.6 | |
| rel_whitespace_R | 20 | 95.3 | TRUE |
| rel_whitespace_src | 30 | 58.7 | |
| rel_whitespace_vignettes | 35 | 84.9 | |
| rel_whitespace_tests | 13 | 97.2 | TRUE |
| doclines_per_fn_exp | 31 | 34.8 | |
| doclines_per_fn_not_exp | 0 | 0.0 | TRUE |
| fn_call_network_size | 181 | 87.5 |
3a. Network visualisation
Click to see the interactive network visualisation of calls between objects in package
4. goodpractice and other checks
Details of goodpractice checks (click to open)
3a. Continuous Integration Badges
GitHub Workflow Results
| id | name | conclusion | sha | run_number | date |
|---|---|---|---|---|---|
| 3118455761 | pages build and deployment | success | e98a12 | 189 | 2022-09-24 |
| 3118431180 | pkgcheck | NA | ee479f | 93 | 2022-09-24 |
| 3118431181 | pkgdown | success | ee479f | 138 | 2022-09-24 |
| 3118431178 | R-CMD-check | success | ee479f | 542 | 2022-09-24 |
| 3118431179 | test-coverage | success | ee479f | 478 | 2022-09-24 |
3b. goodpractice results
R CMD check with rcmdcheck
R CMD check generated the following error:
- checking tests ...
Running ‘testthat.R’
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
4. ├─fwildclusterboot::boottest(...)
5. └─fwildclusterboot:::boottest.ivreg(...)
6. └─fwildclusterboot:::set_seed(...)
7. └─JuliaConnectoR::juliaEval("using StableRNGs")
8. └─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
9. ├─base::tryCatch(...)
10. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
11. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
12. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
13. └─JuliaConnectoR:::doCallJulia(funName, jlargs)
14. └─JuliaConnectoR:::handleCallbacksAndOutput()
[ FAIL 16 | WARN 11 | SKIP 0 | PASS 414 ]
Error: Test failures
Execution halted
R CMD check generated the following warnings:
- checking dependencies in R code ... WARNING
'::' or ':::' import not declared from: ‘rstudioapi’
'loadNamespace' or 'requireNamespace' call not declared from: ‘rstudioapi’ - checking S3 generic/method consistency ... WARNING
tidy:
function(x, ...)
tidy.boottest:
function(object, ...)
tidy:
function(x, ...)
tidy.mboottest:
function(object, ...)
See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
R CMD check generated the following notes:
- checking installed package size ... NOTE
installed size is 8.8Mb
sub-directories of 1Mb or more:
libs 7.7Mb - checking R code for possible problems ... NOTE
.wrap_message_line: no visible global function definition for ‘.bold’
.wrap_message_line: no visible global function definition for ‘.italic’
.wrap_message_line: no visible global function definition for ‘.blue’
Undefined global functions or variables:
.blue .bold .italic
R CMD check generated the following test_fail:
-
library(testthat)
library(fwildclusterboot)
test_check("fwildclusterboot")
Loading required namespace: fixest
The variable 'X2' has been removed because of collinearity (see $collin.var).
Starting Julia ...
Loading required namespace: data.table
R
Variables 'log_income::17.2069212919256:Q1_immigration::3' and 'log_income::18.0802367820713:Q1_immigration::3' have been removed because of collinearity (see $collin.var).
NOTE: 2 fixed-effect singletons were removed (2 observations).
WildBootTests.jl
Loading required namespace: ivreg
Part 1: Full enumeration Tests (deterministic)
start ols/wls
type: rademacher p-val: two-tailed null imposed: TRUE
rademacher
two-tailed
TRUE
type: rademacher p-val: equal-tailed null imposed: TRUE
rademacher
equal-tailed
TRUE
type: rademacher p-val: > null imposed: TRUE
rademacher
TRUE
type: rademacher p-val: < null imposed: TRUE
rademacher
<
TRUE
julia connector prepared? TRUEPart 1: Full enumeration Tests (deterministic)
start ols/wls
type: rademacher p-val: two-tailed null imposed: TRUE
rademacher
two-tailed
TRUE
Variance contained negative values in the diagonal and was 'fixed' (a la Cameron, Gelbach & Miller 2011).
Variance contained negative values in the diagonal and was 'fixed' (a la Cameron, Gelbach & Miller 2011).
Variance contained negative values in the diagonal and was 'fixed' (a la Cameron, Gelbach & Miller 2011).
Variance contained negative values in the diagonal and was 'fixed' (a la Cameron, Gelbach & Miller 2011).
boottest()
boottest()
start ols/wls
Part 1: Large B Tests
start ols/wls
type: rademacher p-val: two-tailed null imposed: TRUE
rademacher
two-tailed
TRUE
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
julia connector prepared? TRUE
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
julia connector prepared? TRUE
The Julia environment variable 'JULIA_BINDIR' could not be found.Therefore, all tests that involve 'WildBootTests.jl' will be skipped.
julia connector prepared? TRUE
[ FAIL 16 | WARN 11 | SKIP 0 | PASS 414 ]
══ Warnings ════════════════════════════════════════════════════════════════════
── Warning (test_tidy.R:22:5): test tidiers with q = 1 ─────────────────────────
There are only 1024 unique draws from the rademacher distribution for 10 bootstrap clusters. Therefore, B = 1024 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 1024 bootstrap draws, only 2^(#clusters - 1) = 512 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see Webb Reworking wild bootstrap based inference for clustered errors (2013).
Backtrace:
- fwildclusterboot::boottest(...)
at test_tidy.R:22:4 - fwildclusterboot:::boottest.lm(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test_tidy.R:28:5): test tidiers with q = 1 ─────────────────────────
There are only 1024 unique draws from the rademacher distribution for 10 bootstrap clusters. Therefore, B = 1024 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 1024 bootstrap draws, only 2^(#clusters - 1) = 512 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test_tidy.R:28:4 - fwildclusterboot:::boottest.lm(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-error_warning.R:1208:9): errors and warnings q = 1 ────────────
Currently, boottest() calculates confidence intervals for one-sided
hypotheses only for engine = 'WildBootTests.jl'.
Backtrace: - testthat::expect_error(...)
at test-error_warning.R:1208:8 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::r_algo_checks(...)
── Warning (test-error_warning.R:1220:9): errors and warnings q = 1 ────────────
Currently, boottest() calculates confidence intervals for one-sided
hypotheses only for engine = 'WildBootTests.jl'.
Backtrace: - testthat::expect_error(...)
at test-error_warning.R:1220:8 - fwildclusterboot:::boottest.felm(...)
- fwildclusterboot:::r_algo_checks(...)
── Warning (test-method_equivalence.R:135:5): Do different, but equivalent ways to specify
linear models lead to equivalent results? ──
Negative eigenvalues set to zero in multiway clustered variance matrix. See felm(...,psdef=FALSE)
Backtrace: - lfe::felm(...)
at test-method_equivalence.R:135:4 - lfe:::felm.mm(...)
- lfe:::newols(...)
── Warning (test-method_equivalence.R:160:5): Do different, but equivalent ways to specify
linear models lead to equivalent results? ──
Negative eigenvalues set to zero in multiway clustered variance matrix. See felm(...,psdef=FALSE)
Backtrace: - lfe::felm(...)
at test-method_equivalence.R:160:4 - lfe:::felm.mm(...)
- lfe:::newols(...)
── Warning (test-method_equivalence.R:167:5): Do different, but equivalent ways to specify
linear models lead to equivalent results? ──
Negative eigenvalues set to zero in multiway clustered variance matrix. See felm(...,psdef=FALSE)
Backtrace: - lfe::felm(...)
at test-method_equivalence.R:167:4 - lfe:::felm.mm(...)
- lfe:::newols(...)
── Warning (test-uncategorized.R:45:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:45:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:53:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:53:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:61:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:61:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
── Warning (test-uncategorized.R:69:3): uncategorized tests ────────────────────
There are only 64 unique draws from the rademacher distribution for 6 bootstrap clusters. Therefore, B = 64 with full enumeration. Consider using webb weights instead.
Further, note that under full enumeration and with B = 64 bootstrap draws, only 2^(#clusters - 1) = 32 distinct t-statistics and p-values can be computed. For a
more thorough discussion, see WebbReworking wild bootstrap based inference for clustered errors(2013).
Backtrace: - fwildclusterboot::boottest(...)
at test-uncategorized.R:69:2 - fwildclusterboot:::boottest.fixest(...)
- fwildclusterboot:::check_set_full_enumeration(...)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test_tidy.R:35:5): test tidiers with q = 1 ───────────────────────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─fwildclusterboot::boottest(...) at test_tidy.R:35:4
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
-
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test_tidy.R:82:3): test tidiers with q > 1 ───────────────────────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─fwildclusterboot::mboottest(...) at test_tidy.R:82:2
- └─fwildclusterboot:::mboottest.lm(...)
- └─fwildclusterboot:::set_seed(...)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
-
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Failure (test-error_warning.R:625:7): errors and warnings q = 1 ─────────────
boottest(...) did not throw the expected message.
── Failure (test-error_warning.R:638:9): errors and warnings q = 1 ─────────────
boottest(...) did not throw the expected message.
── Failure (test-error_warning.R:650:9): errors and warnings q = 1 ─────────────
boottest(...) did not throw the expected message.
── Error (test-error_warning.R:246:9): errors and warnings q = 1 ───────────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─base::suppressWarnings(...) at test-error_warning.R:246:8
- │ └─base::withCallingHandlers(...)
- ├─testthat::expect_warning(...)
- │ └─testthat:::expect_condition_matching(...)
- │ └─testthat:::quasi_capture(...)
- │ ├─testthat (local) .capture(...)
- │ │ └─base::withCallingHandlers(...)
- │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-error_warning.R:1509:5): error warning IV/WRE and q > 1 ─────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─testthat::expect_warning(...) at test-error_warning.R:1509:4
- │ └─testthat:::expect_condition_matching(...)
- │ └─testthat:::quasi_capture(...)
- │ ├─testthat (local) .capture(...)
- │ │ └─base::withCallingHandlers(...)
- │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
- ├─base::suppressMessages(...)
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.ivreg(...)
- └─fwildclusterboot:::set_seed(...)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-full-enumeration.R:295:13): test full enumeration cases: r and julia ──
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─base::suppressWarnings(...) at test-full-enumeration.R:295:12
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
-
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-global_vars.R:18:5): global engine ──────────────────────────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─base::suppressWarnings(...) at test-global_vars.R:18:4
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
-
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-method_equivalence.R:1227:5): Do different, but equivalent ways to specify
linear models lead to equivalent results? ──
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- └─fwildclusterboot (local) create_models(clustid = "group_id1") at test-method_equivalence.R:1227:4
- ├─base::assign(...) at test-method_equivalence.R:187:8
- ├─base::suppressWarnings(...)
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.lm(...)
-
└─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type) -
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr)
-
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-new-bootstrap-variants.R:271:5): variants 31 R vs Julia ─────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─fwildclusterboot::boottest(...) at test-new-bootstrap-variants.R:271:4
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
-
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-r-vs-julia.R:86:15): test r against Julia I: stochastic tests ───
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─base::suppressWarnings(...) at test-r-vs-julia.R:86:14
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
-
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-seed.R:31:7): seed works for OLS ────────────────────────────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─base::suppressMessages(...) at test-seed.R:31:6
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
-
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-tstat_equivalence.R:428:19): t-stat equivalence OLS - WildBootTests ──
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- ├─base::suppressWarnings(...) at test-tstat_equivalence.R:428:18
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.lm(...)
- └─fwildclusterboot:::set_seed(seed = seed, engine = engine, type = type)
-
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...) -
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
-
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-tstat_equivalence.R:882:5): t-stat equivalence OLS q > 1 ────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- └─fwildclusterboot (local) wald_test(run_this_test = TRUE) at test-tstat_equivalence.R:882:4
- ├─base::suppressWarnings(...) at test-tstat_equivalence.R:671:8
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::mboottest(...)
- └─fwildclusterboot:::mboottest.lm(...)
-
└─fwildclusterboot:::set_seed(...) -
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...)
-
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
── Error (test-tstat_equivalence.R:966:5): t-stat equivalence IV ───────────────
Error: Evaluation in Julia failed.
Original Julia error message:
LoadError: ArgumentError: Package StableRNGs not found in current path.
- Run
import Pkg; Pkg.add("StableRNGs")to install the StableRNGs package.
Stacktrace:
[1] macro expansion
@ ./loading.jl:1163 [inlined]
[2] macro expansion
@ ./lock.jl:223 [inlined]
[3] require(into::Module, mod::Symbol)
@ Base ./loading.jl:1144
[4] eval
@ ./boot.jl:368 [inlined]
[5] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base ./loading.jl:1428
[6] include_string (repeats 2 times)
@ ./loading.jl:1438 [inlined]
[7] mainevalcmd(str::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:150
[8] invokelatest(::Any, ::Any, ::Vararg{Any}; kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, NamedTuple{(), Tuple{}}})
@ Base ./essentials.jl:729
[9] invokelatest(::Any, ::Any, ::Vararg{Any})
@ Base ./essentials.jl:726
[10] evaluate!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:67
[11] evaluate_checked!(call::Main.RConnector.Call, communicator::Main.RConnector.CommunicatoR{Sockets.TCPSocket})
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/evaluating.jl:55
[12] serve_repl(sock::Sockets.TCPSocket)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:185
[13] serve(port_hint::Int64; multiclient::Bool, portfile::String)
@ Main.RConnector /usr/local/lib/R/site-library/JuliaConnectoR/Julia/communicating.jl:152
[14] top-level scope
@ /usr/local/lib/R/site-library/JuliaConnectoR/Julia/main.jl:23
[15] include(mod::Module, _path::String)
@ Base ./Base.jl:419
[16] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:303
[17] _start()
@ Base ./client.jl:522
in expression starting at string:1
Backtrace:
▆- └─fwildclusterboot (local) iv_test(run_this_test = TRUE) at test-tstat_equivalence.R:966:4
- ├─base::suppressWarnings(...) at test-tstat_equivalence.R:931:8
- │ └─base::withCallingHandlers(...)
- ├─fwildclusterboot::boottest(...)
- └─fwildclusterboot:::boottest.ivreg(...)
-
└─fwildclusterboot:::set_seed(...) -
└─JuliaConnectoR::juliaEval("using StableRNGs") -
└─JuliaConnectoR::juliaCall("RConnector.mainevalcmd", expr) -
├─base::tryCatch(...)
-
│ └─base (local) tryCatchList(expr, classes, parentenv, handlers) -
│ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) -
│ └─base (local) doTryCatch(return(expr), name, parentenv, handler) -
└─JuliaConnectoR:::doCallJulia(funName, jlargs) -
└─JuliaConnectoR:::handleCallbacksAndOutput()
[ FAIL 16 | WARN 11 | SKIP 0 | PASS 414 ]
Error: Test failures
Execution halted
R CMD check generated the following check_fails:
- rcmdcheck_undeclared_imports
- rcmdcheck_undeclared_loadnamespace_requirenamespace
- rcmdcheck_undefined_globals
- rcmdcheck_tests_pass
- rcmdcheck_reasonable_installed_size
Test coverage with covr
ERROR: Test Coverage Failed
Cyclocomplexity with cyclocomp
The following functions have cyclocomplexity >= 15:
| function | cyclocomplexity |
|---|---|
| get_cluster | 35 |
| gtools_permutations | 34 |
| boot_algo3 | 24 |
| boot_aggregate | 22 |
| boot_algo_julia | 21 |
| getBoottest_nthreads | 16 |
| boottest.fixest | 15 |
| boottest.lm | 15 |
| check_boottest_args_plus | 15 |
Static code analyses with lintr
lintr found the following 70 potential issues:
| message | number of times |
|---|---|
| Avoid library() and require() calls in packages | 13 |
| Avoid using sapply, consider vapply instead, that's type safe | 1 |
| Lines should not be more than 80 characters. | 11 |
| Use <-, not =, for assignment. | 45 |
5. Other Checks
Details of other checks (click to open)
✖️ The following 2 function names are duplicated in other packages:
-
format_messagefrom insight
-
pvalfrom CIPerm, dostats, dostats, GUIDE, learnstats, molic, mosaic, overlapptest, RPtests, timereg
Package Versions
| package | version |
|---|---|
| pkgstats | 0.1.1.44 |
| pkgcheck | 0.1.0.24 |
| srr | 0.0.1.180 |
Editor-in-Chief Instructions:
Processing may not proceed until the items marked with ✖️ have been resolved.
|
Dear @s3alfisc Today starts my rotation as EiC and I'm reviewing the status of current open reviews. Thanks a lot for your efforts in meeting our standards. Where are we standing now? Do you feel ready for me to resume the review process? The next step would be to re-run checks and then look for a handling editor. |
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Hi @maurolepore - thanks for reaching out - I was actually about to do the same this weekend! Unfortunately, I never got the |
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Actually, |
|
I've run the pkgcheck action, with the following results:
I'll start the bot to confirm all of this later today & then you can decide if you think everything is good enough to proceed, @maurolepore ? |
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@ropensci-review-bot check package |
|
Yes please send the draft. Thanks!
On Sat, Apr 1, 2023 at 6:39 AM Alexander Fischer ***@***.***> wrote:
@mpadge <https://github.com/mpadge> asked me to clarify that the review
should be based on the "master" branch - the repo used to have a dedicated
"ropensci" branch - to which this submission was linked - which I have
deprecated a while back as it had gotten stale.
Besides, I have a paper draft for fwildclusterboot, which is not yet in a
state to be shared widely, but which I think could be helpful to reviewers,
as it gives details on some of the few small deviations of the algorithm
implemented in fwildclusterboot vs the fast and wild paper. Should I send
you this draft @meghapsimatrix <https://github.com/meghapsimatrix>?
—
Reply to this email directly, view it on GitHub
<#546 (comment)>,
or unsubscribe
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You are receiving this because you were mentioned.Message ID:
***@***.***>
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Megha Joshi, PhD
she/her/hers
meghapsimatrix.com
|
|
Thanks Alex, looking good. Regarding the readme.Rmd, this line defines the title for the readme as well as for the pkgdown site: |
Package ReviewPlease check off boxes as applicable, and elaborate in comments below. Your review is not limited to these topics, as described in the reviewer guide
DocumentationThe package includes all the following forms of documentation:
Functionality
Estimated hours spent reviewing:
Review CommentsThis is a great package with super fast implementation of cluster wild bootstrap. Thanks for the opportunity to review. R CMD check 1 NOTE Comments on vignettes and documentation and comments on trying to use the functions (organized based on sections of the pkgdown website https://s3alfisc.github.io/fwildclusterboot/index.html)
|
|
Thanks for the review @meghapsimatrix! I apologize that unfortunately it seems that the review template link in my email was incorrect, as your review used the basic template used for non-statistical-software packages. Would you mind filling the correct one, which can be found here: https://stats-devguide.ropensci.org/pkgreview.html#pkgrev-template? @s3alfisc I am still seeking for another reviewer, you might want to hold on with non-trivial software updates and replies until we've gotten a second review as well. |
|
Sorry about that! Will fill out the correct one!
…On Fri, Apr 14, 2023 at 12:47 AM Jouni Helske ***@***.***> wrote:
Thanks for the review @meghapsimatrix <https://github.com/meghapsimatrix>!
I apologize that unfortunately it seems that the review template link in my
email was incorrect, as your review used the basic template used for
non-statistical-software packages. Would you mind filling the correct one,
which can be found here:
https://stats-devguide.ropensci.org/pkgreview.html#pkgrev-template?
@s3alfisc <https://github.com/s3alfisc> I am still seeking for another
reviewer, you might want to hold on with non-trivial software updates and
replies until we've gotten a second review as well.
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You are receiving this because you were mentioned.Message ID:
***@***.***>
--
Megha Joshi, PhD
she/her/hers
meghapsimatrix.com
|
|
Thanks for your review @meghapsimatrix! I will start incorporating your feedback over the next days and will also reply in more detail =) |
|
📆 @meghapsimatrix you have 2 days left before the due date for your review (2023-04-17). |
|
Hi @meghapsimatrix, first of all, thanks for your review! It thought it easiest to address it point by point =)
Best, Alex |
|
Here is the correct template filled out :) @s3alfisc thanks for addressing my comments :) Great job on this super useful package :) Package ReviewPlease check off boxes as applicable, and elaborate in comments below. Your review is not limited to these topics, as described in the reviewer guide
Compliance with Standards
The following standards currently deemed non-applicable (through tags of Please also comment on any standards which you consider either particularly well, or insufficiently, documented. - G1.0 is well documented. The authors have made clear connections to academic literature. - G.1.1 is also well documented. The authors provide citations to the novel-ness of the algorithm in general and in R. - G.1.3 Some statistical terminology could be expanded upon more. For example, vignettes use terms like restricted and unrestricted bootstraps which could use bit more explanation :) - RE4.18 and 4.3 to 4.5 Summary output and tidy outputs are well done. For packages aiming for silver or gold badges:
- Compliance with a good number of standards beyond those identified as minimally necessary. Numbers of standards: G : 50 / 68; RE : 20 / 48; Total : 70 / 116 - Demonstrating excellence in compliance with multiple standards from at least two broad sub-categories.The package demonstrates excellence in compliance with G.1.0, G.1.1, RE4.18 and RE4.3 to 4.5 - Generality of usage beyond one single envisioned use case. The package supports ordinary least squares (OLS), fixed effects, and instrumental variables (IV) regression models. Subcluster bootstrapping, multiway bootstrapping, confidence intervals calculations are also supported. - Internal aspects of package structure and design. Algorithms are written in a way that is efficient, flexible, generalizable, and accurate. Right now the package works for OLS and IV models. More types of models, like multilevel models, could be incorporated. General ReviewDocumentationThe package includes all the following forms of documentation:
Estimated hours spent reviewing: 10 hours
Further CommentsI already provided narrative comments which have been addressed :) Thanks!! |
|
Hi Megha, I have opened a (yet incomplete PR) on the dev branch to incorporate your feedback. The idea is to add a "FAQ" vignette in which I will try to explain some key concepts without too much technical jargon. I have also added you as a package contributor! |
|
Thank you!
On Sat, Apr 29, 2023 at 7:43 AM Alexander Fischer ***@***.***> wrote:
Hi Megha, I have opened a (yet incomplete PR) on the dev branch
<s3alfisc/fwildclusterboot#114>to incorporate
your feedback. The idea is to add a "FAQ" vignette in which I will try to
explain some key concepts without too much technical jargon. I have also
added you as a package contributor!
—
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You are receiving this because you were mentioned.Message ID:
***@***.***>
--
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meghapsimatrix.com
|
|
@ropensci-review-bot assign @markean as reviewer |
|
@markean added to the reviewers list. Review due date is 2023-05-29. Thanks @markean for accepting to review! Please refer to our reviewer guide. rOpenSci’s community is our best asset. We aim for reviews to be open, non-adversarial, and focused on improving software quality. Be respectful and kind! See our reviewers guide and code of conduct for more. |
ropensci-review-bot
added
3/reviewer(s)-assigned
and removed
2/seeking-reviewer(s)
labels
|
📆 @markean you have 2 days left before the due date for your review (2023-05-29). |
|
Hi @s3alfisc. Thank you for submitting your interesting package. I have attached my review below, which is based on the latest GitHub version. Hope it is helpful! Package ReviewPlease check off boxes as applicable, and elaborate in comments below. Your review is not limited to these topics, as described in the reviewer guide
Compliance with Standards
The following standards currently deemed non-applicable (through tags of Please also comment on any standards which you consider either particularly well, or insufficiently, documented. I have checked the standards via the
For packages aiming for silver or gold badges:
General ReviewDocumentationThe package includes all the following forms of documentation:
I think adding 'Details' sections in the generic AlgorithmsIt seems there is no way to gracefully interrupt or abort the execution of the Visualisation (where appropriate)In the Package Design
OthersThe use of
Estimated hours spent reviewing: 12 hours
|
|
Hi @markean, Thanks a lot for your thorough and very helpful review! One key takeaway from your and @meghapsimatrix's review is that I should assume less specialized knowledge from my package's users and explain multiple concepts in more detail. I will definitely work on that! Statistical Software StandardsI am sorry about not placing the standard tags in the code - I tried this at some point, but it soon appeared to me that my code would be clustered with tags if I handled it that way. Maybe I should have just done so anyways, and am happy to do it if it helps you assess how the package complies with standards, @markean. Regarding the standards that you mentioned in more detail:
Other comments
This is a great suggestion, I will make sure to add this.
In fact I currently don't know how to do this. The "main" algorithm is fully vectorized. The c++ code that cannot be interrupted is either a matrix multiplication via rcpp::eigen or the creation of the G X B bootstrap weights matrix. For the heteroskedastic bootstrap, there are some c++ for loops, and I think that rcpp provides options to (more or less, or even fully) gracefully abort. I will read up on this!
All great points, I'll work on that.
Unfortunately, I don't think so. Generation of rademacher, webb and normal weights via
So, this was a very long response - sorry about that 😄. Thanks so much for your review @markean! I will try to address all your (and @meghapsimatrix's) feedback swiftly (I plan to work on it over the next weekend) and will ping you once there are updates / once I am finished. Best, Alex |
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@s3alfisc Perspective from the rOpenSci stats team is that standards documentation should definitely be done inline, at each point in the code at which compliance actually occurs. This enables both easy understanding of compliance, and far easier long-term maintenance for you, as you yourself then don't have to constantly switch back-and-forth between two separate locations for code and compliance documentation. We have also updated our check system to ensure that documentation of stats compliance is not concentrated in a single file, so your package may well fail that check if run again now? (If you want to see, it's probably best to set up our |
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Thanks @mpadge! This is the first thing I'll tackle then :) |
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Just to give an update - I am working on incorporating feedback into the package (see the dev branch). I hope that I will be done by the end of next weekend. |
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@s3alfisc I am currently serving as the rOpenSci EIC and just checking in on things. How's it coming on the updates to your package from the review process? |
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Hi @jhollist , thanks for checking up on this. The honest status update is that I have, to some degree, given up on adressing all of the comments I received out of the review process. The main hurdle are the inline standards documentation via roxygen tags. To some degree, I feel that many of them do not really apply to the package, as On the other hand, I did incorporate many of the other points I got feedback on:
I'm not really sure what the best way forward will be. I have quite a bit of time off until the New Year, so chances are I pull myself together and make sure all the tags can be found in the codebase. To put some pressure on me - how about we keep this review open until Jan 2, and if I haven't made sufficient progress until then, we close the review? Best, Alex |
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Hi, reposting for visibility a message I sent to @mpadge on the topic:
|
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@mpadge please correct me if I'm wrong, but my impression on the standard tags is that it is fine to have some general tags relevant for the whole package for example in the main package documentation, e.g., in Other than than the placement of the standards, if you feel that you have adequately reacted to all points by the reviewers, then we can ask them to take a look and see if they feel ready to approve the package. |
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@ldecicco-USGS and @helske I've had a look through the code, and from my side at least would now be happy with the way that the standards have been documented in-line within the code. I've opened a short TODO list for @s3alfisc at s3alfisc/fwildclusterboot#149. Alex, please report back once you've addressed those, and all should be good to proceed. Thanks 👍 |
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I'll tackle all of your suggestions this weekend. Thanks for the feedback @mpadge! I'll report here once I think I am done =) |
Submitting Author Name: Alexander Fischer
Due date for @meghapsimatrix: 2023-04-17Submitting Author Github Handle: @s3alfisc
Other Package Authors Github handles: (comma separated, delete if none) @droodman
Repository: https://github.com/s3alfisc/fwildclusterboot/tree/master
Version submitted: 0.9.1 (in ropensci branch)
Submission type: Stats
Badge grade: silver
Editor: @helske
Reviewers: @meghapsimatrix, @markean
Due date for @markean: 2023-05-29
Archive: TBD
Version accepted: TBD
Language: en
Pre-submission Inquiry
General Information
Who is the target audience and what are scientific applications of this package?
The target audience is academic social scientists (economics, political science, sociology). fwildclusterboot should be used whenever regression errors are "clustered" into few groups, in which case inference based on asymptotic approximations might fail.
Paste your responses to our General Standard G1.1 here, describing whether your software is:
fwildclusterbootis the first R-implementation of the 'fast' wild cluster bootstrap algorithm outlined in Roodman et al (2019, Stata Journal) and implemented in Stata via the boottest package. Recently, @droodman has also ported the algorithm to Julia. Besides implementing the "fast & wild" algorithm in native R,fwildclusterbootalso allows to callWildBootTests.jlvia theJuliaConnectoRpackage. The "fast" algorithm is significantly faster than any other R-implementations of the wild cluster bootstrap to date (e.g. see here).Yes.
Badging
At a minimal level, I strive for a silver badge.
Technical checks
Confirm each of the following by checking the box.
autotestchecks on the package, and ensured no tests fail.srr_stats_pre_submit()function confirms this package may be submitted.pkgcheck()function confirms this package may be submitted - alternatively, please explain reasons for any checks which your package is unable to pass.pkgcheck::pkgcheck()currently fails on my machine with the following error message: "Error in normalizePath(path.expand(path), winslash, mustWork).: path[1]="C:/.../fwildclusterboot/NA" The system cannot find the specified file. It also fails on github-actions on theropenscibranch.Also, note that the CMD checks currently fail on github actions as the
gtoolspackage has been orphaned - I am monitoring the situation, but it looks like the package will not be removed from CRAN.This package:
Publication options
Code of conduct
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