CRAN Package Check Results for Package MixviR

Last updated on 2026-02-04 07:50:21 CET.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	3.5.0	5.61	52.36	57.97	NOTE
r-devel-linux-x86_64-debian-gcc	3.5.0	4.38	36.73	41.11	ERROR
r-devel-linux-x86_64-fedora-clang	3.5.0	10.00	80.38	90.38	ERROR
r-devel-linux-x86_64-fedora-gcc	3.5.0	10.00	85.79	95.79	ERROR
r-devel-windows-x86_64	3.5.0	10.00	71.00	81.00	OK
r-patched-linux-x86_64	3.5.0	4.23	48.32	52.55	OK
r-release-linux-x86_64	3.5.0	4.24	48.09	52.33	OK
r-release-macos-arm64	3.5.0				OK
r-release-macos-x86_64	3.5.0	4.00	73.00	77.00	OK
r-release-windows-x86_64	3.5.0	8.00	72.00	80.00	OK
r-oldrel-macos-arm64	3.5.0				OK
r-oldrel-macos-x86_64	3.5.0	4.00	89.00	93.00	OK
r-oldrel-windows-x86_64	3.5.0	10.00	88.00	98.00	OK

Check Details

Version: 3.5.0
Check: DESCRIPTION meta-information
Result: NOTE Author field differs from that derived from Authors@R Author: ‘Michael Sovic [aut, ccp, cre] (<https://orcid.org/0000-0002-8556-3704>), Francesca Savona [res], Zuzana Bohrerova [res, fnd], Seth Faith [ccp, ctb] (0000-0002-0441-9859)’ Authors@R: ‘Michael Sovic [aut, ccp, cre] (ORCID: <https://orcid.org/0000-0002-8556-3704>), Francesca Savona [res], Zuzana Bohrerova [res, fnd], Seth Faith [ccp, ctb] (ORDIC: 0000-0002-0441-9859)’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 3.5.0
Check: examples
Result: ERROR Running examples in ‘MixviR-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: create_ref > ### Title: Create MixVir-formatted reference genome object > ### Aliases: create_ref > ### Keywords: reference > > ### ** Examples > > site1 <- "https://raw.githubusercontent.com/mikesovic/MixviR/main/raw_files/GCF_ASM985889v3.fa" > site2 <- "https://raw.githubusercontent.com/mikesovic/MixviR/main/raw_files/sars_cov2_genes.bed" > > if (httr::http_error(site1) | httr::http_error(site2)) { + message("No internet connection or data source broken.") + return(NULL) + } else { + create_ref( + genome = site1, + feature.bed = site2, + code.num = "1") + } Rows: 12 Columns: 6 ── Column specification ──────────────────────────────────────────────────────── Delimiter: "\t" chr (4): X1, X4, X5, X6 dbl (2): X2, X3 ℹ Use `spec()` to retrieve the full column specification for this data. ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message. trying URL 'https://raw.githubusercontent.com/mikesovic/MixviR/main/raw_files/GCF_ASM985889v3.fa' Content type 'text/plain; charset=utf-8' length 30290 bytes (29 KB) ================================================== downloaded 29 KB Error in `dplyr::summarise()`: ℹ In argument: `translation = translate_fwd(REF_BASE, code = code.num)`. ℹ In group 1: `GENE = "E"`. Caused by error: ! `translation` must be size 1, not 228. ℹ To return more or less than 1 row per group, use `reframe()`. Backtrace: ▆ 1. ├─MixviR::create_ref(genome = site1, feature.bed = site2, code.num = "1") 2. │ └─... %>% dplyr::pull(translation) 3. ├─dplyr::pull(., translation) 4. ├─dplyr::arrange(., GENE, POS) 5. ├─dplyr::summarise(...) 6. ├─dplyr:::summarise.grouped_df(...) 7. │ └─dplyr:::summarise_cols(.data, dplyr_quosures(...), by, "summarise") 8. │ └─base::withCallingHandlers(...) 9. ├─dplyr:::dplyr_internal_error(...) 10. │ └─rlang::abort(class = c(class, "dplyr:::internal_error"), dplyr_error_data = data) 11. │ └─rlang:::signal_abort(cnd, .file) 12. │ └─base::signalCondition(cnd) 13. └─dplyr (local) `<fn>`(`<dpl:::__>`) 14. └─dplyr (local) handler(cnd) 15. └─rlang::abort(message, class = error_class, parent = parent, call = error_call) Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 3.5.0
Check: examples
Result: ERROR Running examples in ‘MixviR-Ex.R’ failed The error most likely occurred in: > ### Name: create_ref > ### Title: Create MixVir-formatted reference genome object > ### Aliases: create_ref > ### Keywords: reference > > ### ** Examples > > site1 <- "https://raw.githubusercontent.com/mikesovic/MixviR/main/raw_files/GCF_ASM985889v3.fa" > site2 <- "https://raw.githubusercontent.com/mikesovic/MixviR/main/raw_files/sars_cov2_genes.bed" > > if (httr::http_error(site1) | httr::http_error(site2)) { + message("No internet connection or data source broken.") + return(NULL) + } else { + create_ref( + genome = site1, + feature.bed = site2, + code.num = "1") + } Rows: 12 Columns: 6 ── Column specification ──────────────────────────────────────────────────────── Delimiter: "\t" chr (4): X1, X4, X5, X6 dbl (2): X2, X3 ℹ Use `spec()` to retrieve the full column specification for this data. ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message. trying URL 'https://raw.githubusercontent.com/mikesovic/MixviR/main/raw_files/GCF_ASM985889v3.fa' Content type 'text/plain; charset=utf-8' length 30290 bytes (29 KB) ================================================== downloaded 29 KB Error in `dplyr::summarise()`: ℹ In argument: `translation = translate_fwd(REF_BASE, code = code.num)`. ℹ In group 1: `GENE = "E"`. Caused by error: ! `translation` must be size 1, not 228. ℹ To return more or less than 1 row per group, use `reframe()`. Backtrace: ▆ 1. ├─MixviR::create_ref(genome = site1, feature.bed = site2, code.num = "1") 2. │ └─... %>% dplyr::pull(translation) 3. ├─dplyr::pull(., translation) 4. ├─dplyr::arrange(., GENE, POS) 5. ├─dplyr::summarise(...) 6. ├─dplyr:::summarise.grouped_df(...) 7. │ └─dplyr:::summarise_cols(.data, dplyr_quosures(...), by, "summarise") 8. │ └─base::withCallingHandlers(...) 9. ├─dplyr:::dplyr_internal_error(...) 10. │ └─rlang::abort(class = c(class, "dplyr:::internal_error"), dplyr_error_data = data) 11. │ └─rlang:::signal_abort(cnd, .file) 12. │ └─base::signalCondition(cnd) 13. └─dplyr (local) `<fn>`(`<dpl:::__>`) 14. └─dplyr (local) handler(cnd) 15. └─rlang::abort(message, class = error_class, parent = parent, call = error_call) Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc