CRAN Package Check Results for Maintainer ‘Sebastian Lequime <sebastian.lequime at gmail.com>’

Last updated on 2025-12-21 17:51:23 CET.

Package	ERROR	OK
nosoi	4	9

Package nosoi

Current CRAN status: ERROR: 4, OK: 9

Version: 1.1.2
Check: tests
Result: ERROR Running ‘testthat.R’ [58s/59s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > if (requireNamespace("testthat", quietly = TRUE)) { + + library(testthat) + library(nosoi) + + test_check("nosoi") + + } Loading required package: data.table Attaching package: 'data.table' The following object is masked from 'package:base': %notin% Saving _problems/testTransmissionTree-47.R Saving _problems/testTransmissionTree-204.R Saving _problems/testTransmissionTree-370.R Saving _problems/testTransmissionTree-557.R Saving _problems/testTransmissionTree-738.R Saving _problems/testTransmissionTree-819.R Saving _problems/testTransmissionTree-973.R [ FAIL 7 | WARN 2 | SKIP 0 | PASS 477 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('testTransmissionTree.R:47:3'): Single, discrete ───────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 11/11 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:47:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:204:3'): Single, continuous ────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 15/15 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:204:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:370:3'): Dual, discrete ────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 12/12 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:370:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:557:3'): Dual, continuous ──────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 16/16 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:557:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:738:3'): Single, discrete, Sink ────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 12/12 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationSingle) at testTransmissionTree.R:738:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:819:3'): Single, none ──────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 8/8 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationSingle) at testTransmissionTree.R:819:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:973:3'): Dual, none ────────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 9/9 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationDual) at testTransmissionTree.R:973:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) [ FAIL 7 | WARN 2 | SKIP 0 | PASS 477 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.1.2
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘continuous.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘continuous.Rmd’ --- re-building ‘discrete.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘discrete.Rmd’ --- re-building ‘none.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘none.Rmd’ --- re-building ‘nosoi.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘nosoi.Rmd’ --- re-building ‘output.Rmd’ using rmarkdown Quitting from output.Rmd:400-421 [treeA_actual] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `[.data.table`: ! attempt access index 11/11 in VECTOR_ELT --- Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'output.Rmd' failed with diagnostics: attempt access index 11/11 in VECTOR_ELT --- failed re-building ‘output.Rmd’ SUMMARY: processing the following file failed: ‘output.Rmd’ Error: Vignette re-building failed. Execution halted Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 1.1.2
Check: tests
Result: ERROR Running ‘testthat.R’ [33s/40s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > if (requireNamespace("testthat", quietly = TRUE)) { + + library(testthat) + library(nosoi) + + test_check("nosoi") + + } Loading required package: data.table Attaching package: 'data.table' The following object is masked from 'package:base': %notin% Saving _problems/testTransmissionTree-47.R Saving _problems/testTransmissionTree-204.R Saving _problems/testTransmissionTree-370.R Saving _problems/testTransmissionTree-557.R Saving _problems/testTransmissionTree-738.R Saving _problems/testTransmissionTree-819.R Saving _problems/testTransmissionTree-973.R [ FAIL 7 | WARN 2 | SKIP 0 | PASS 477 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('testTransmissionTree.R:47:3'): Single, discrete ───────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 11/11 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:47:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:204:3'): Single, continuous ────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 15/15 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:204:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:370:3'): Dual, discrete ────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 12/12 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:370:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:557:3'): Dual, continuous ──────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 16/16 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:557:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:738:3'): Single, discrete, Sink ────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 12/12 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationSingle) at testTransmissionTree.R:738:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:819:3'): Single, none ──────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 8/8 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationSingle) at testTransmissionTree.R:819:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:973:3'): Dual, none ────────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 9/9 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationDual) at testTransmissionTree.R:973:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) [ FAIL 7 | WARN 2 | SKIP 0 | PASS 477 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.1.2
Check: tests
Result: ERROR Running ‘testthat.R’ [89s/170s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > if (requireNamespace("testthat", quietly = TRUE)) { + + library(testthat) + library(nosoi) + + test_check("nosoi") + + } Loading required package: data.table Attaching package: 'data.table' The following object is masked from 'package:base': %notin% Saving _problems/testTransmissionTree-47.R Saving _problems/testTransmissionTree-204.R Saving _problems/testTransmissionTree-370.R Saving _problems/testTransmissionTree-557.R Saving _problems/testTransmissionTree-738.R Saving _problems/testTransmissionTree-819.R Saving _problems/testTransmissionTree-973.R [ FAIL 7 | WARN 2 | SKIP 0 | PASS 477 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('testTransmissionTree.R:47:3'): Single, discrete ───────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 11/11 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:47:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:204:3'): Single, continuous ────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 15/15 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:204:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:370:3'): Dual, discrete ────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 12/12 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:370:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:557:3'): Dual, continuous ──────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 16/16 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:557:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:738:3'): Single, discrete, Sink ────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 12/12 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationSingle) at testTransmissionTree.R:738:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:819:3'): Single, none ──────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 8/8 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationSingle) at testTransmissionTree.R:819:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:973:3'): Dual, none ────────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 9/9 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationDual) at testTransmissionTree.R:973:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) [ FAIL 7 | WARN 2 | SKIP 0 | PASS 477 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.1.2
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘continuous.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘continuous.Rmd’ --- re-building ‘discrete.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘discrete.Rmd’ --- re-building ‘none.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘none.Rmd’ --- re-building ‘nosoi.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘nosoi.Rmd’ --- re-building ‘output.Rmd’ using rmarkdown Quitting from output.Rmd:400-421 [treeA_actual] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `[.data.table`: ! attempt access index 11/11 in VECTOR_ELT --- Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'output.Rmd' failed with diagnostics: attempt access index 11/11 in VECTOR_ELT --- failed re-building ‘output.Rmd’ SUMMARY: processing the following file failed: ‘output.Rmd’ Error: Vignette re-building failed. Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 1.1.2
Check: tests
Result: ERROR Running ‘testthat.R’ [80s/95s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > if (requireNamespace("testthat", quietly = TRUE)) { + + library(testthat) + library(nosoi) + + test_check("nosoi") + + } Loading required package: data.table Attaching package: 'data.table' The following object is masked from 'package:base': %notin% Saving _problems/testTransmissionTree-47.R Saving _problems/testTransmissionTree-204.R Saving _problems/testTransmissionTree-370.R Saving _problems/testTransmissionTree-557.R Saving _problems/testTransmissionTree-738.R Saving _problems/testTransmissionTree-819.R Saving _problems/testTransmissionTree-973.R [ FAIL 7 | WARN 2 | SKIP 0 | PASS 477 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('testTransmissionTree.R:47:3'): Single, discrete ───────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 11/11 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:47:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:204:3'): Single, continuous ────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 15/15 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:204:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:370:3'): Dual, discrete ────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 12/12 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:370:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:557:3'): Dual, continuous ──────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 16/16 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(test.nosoiA) at testTransmissionTree.R:557:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:738:3'): Single, discrete, Sink ────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 12/12 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationSingle) at testTransmissionTree.R:738:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:819:3'): Single, none ──────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 8/8 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationSingle) at testTransmissionTree.R:819:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) ── Error ('testTransmissionTree.R:973:3'): Dual, none ────────────────────────── Error in ``[.data.table`(table.hosts, , `:=`("indNodes", .GRP), by = c("inf.by", "inf.time"))`: attempt access index 9/9 in VECTOR_ELT Backtrace: ▆ 1. └─nosoi::getTransmissionTree(SimulationDual) at testTransmissionTree.R:973:3 2. ├─table.hosts[, `:=`("indNodes", .GRP), by = c("inf.by", "inf.time")] 3. └─data.table:::`[.data.table`(...) [ FAIL 7 | WARN 2 | SKIP 0 | PASS 477 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc