cran-comments.md

In SingerLab/gac: Genetic Analysis of Cells

Test environments

• local R installation, R version 4.2.2 (2022-10-31)
• ubuntu 16.04 (on travis-ci), R 4.1.0
• CentOS7 Institutional HPC Cluster

R CMD check results

Wed Mar 20 13:48:41 EDT 2024

── R CMD check results ────────────────────────────────────────────────── gac 0.0.9037 ──── Duration: 5m 53.6s

❯ checking whether package ‘gac’ can be installed ... WARNING See below... W checking whether package ‘gac’ can be installed (8.9s) Found the following significant warnings: Warning: package ‘dplyr’ was built under R version 4.2.3

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 4.5Mb

0 errors ✔ | 1 warning ✖ | 1 note ✖

Tue Jul 18 16:16:56 EDT 2023

── R CMD check results ─────────────────────────────────────────────── gac 0.0.9036 ──── Duration: 10m 3.8s

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 4.5Mb doc 1.0Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Thu May 25 21:07:10 EDT 2023

── R CMD check results ──────────────────────────────────────────────── gac 0.0.9035 ──── Duration: 3h 42.5s

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 4.5Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Tue May 23 15:33:07 EDT 2023

── R CMD check results ────────────────────────────────────────────────────── gac 0.0.9034 ──── Duration: 19m 50.1s

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 4.5Mb doc 1.1Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Sun May 21 01:46:29 EDT 2023

── R CMD check results ────────────────────────────────────────────────────── gac 0.0.9033 ──── Duration: 20m 35.9s

❯ checking installed package size ... NOTE installed size is 7.7Mb sub-directories of 1Mb or more: data 3.3Mb doc 4.0Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Fri May 19 21:19:39 EDT 2023

── R CMD check results ────────────────────────────────────────────────────── gac 0.0.9032 ──── Duration: 21m 30.7s

❯ checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.0Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Fri Mar 10 16:36:02 EST 2023

── R CMD check results ────────────────────────────────────────────────────── gac 0.0.9031 ──── Duration: 9m 53.2s

❯ checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.0Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Thu Mar 2 13:28:46 EST 2023

── R CMD check results ───────────────────────────────────────────────────── gac 0.0.90030 ──── Duration: 9m 42.8s

❯ checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.0Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Tue Oct 11 12:13:35 EDT 2022

── R CMD check results ───────────────────────────────────────────────────── gac 0.0.90029 ──── Duration: 9m 44.9s

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.1Mb

Thu Sep 22 12:09:26 EDT 2022

── R CMD check results ───────────────────────────────────────────────────── gac 0.0.90029 ──── Duration: 31m 45.2s

❯ checking installed package size ... NOTE installed size is 6.2Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.2Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Fri Sep 9 08:23:10 EDT 2022

── R CMD check results ───────────────────────────────────────────────────── gac 0.0.90028 ──── Duration: 15m 5.3s

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.1Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

── R CMD check results ────────────────────────────────────────────────────── gac 0.0.90028 ──── Duration: 15m 52.7s

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.1Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Thu Sep 8 11:32:33 EDT 2022

── R CMD check results ────────────────────────────────────────────────────── gac 0.0.90027 ──── Duration: 12m 30.7s

❯ checking PDF version of manual ... WARNING LaTeX errors when creating PDF version. This typically indicates Rd problems. LaTeX errors found: ! LaTeX Error: File `inconsolata.sty' not found.

Type X to quit or to proceed, or enter new name. (Default extension: sty)

! Emergency stop.

l.297 ^^M

! ==> Fatal error occurred, no output PDF file produced!

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.1Mb

❯ checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘gac-manual.tex’

0 errors ✔ | 1 warning ✖ | 2 notes ✖

Wed Sep 7 16:51:29 EDT 2022

── R CMD check results ────────────────────────────────────────────────────── gac 0.0.90027 ──── Duration: 9m 44.6s

❯ checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: data 3.5Mb doc 2.1Mb

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Wed Aug 31 23:02:21 EDT 2022

── R CMD check results ─────────────────────────────────────────────────────── gac 0.0.90026 ──── Duration: 1h 17m 19.9s

❯ checking whether package ‘gac’ can be installed ... WARNING See below... Warning: package ‘vegan’ was built under R version 4.1.1 ...

0 errors ✔ | 1 warning ✖ | 0 notes ✔

Mon May 24 23:26:20 EDT 2021

── R CMD check results ────────────────────────────────────── gac 0.0.90022 ──── Duration: 8m 54.7s

0 errors ✔ | 0 warnings ✔ | 0 notes ✔

Mon Apr 19 16:18:56 2021

── R CMD check results ────────────────────────────────────── gac 0.0.90021 ──── Duration: 9m 1.4s

0 errors ✔ | 0 warnings ✔ | 0 notes ✔

Sun Apr 11 00:16:00 2021

── R CMD check results ────────────────────────────────────── gac 0.0.90020 ──── Duration: 9m 10.8s

0 errors ✔ | 0 warnings ✔ | 0 notes ✔

Sun Mar 7 12:40:35 2021

── R CMD check results ────────────────────────────────────── gac 0.0.90019 ──── Duration: 9m 4.9s

❯ checking R code for possible problems ... NOTE doKSpectral: no visible binding for global variable ‘topEigenValues’ doKSpectral: no visible binding for global variable ‘k’ doKSpectral: no visible binding for global variable ‘dLambdaMax’ Undefined global functions or variables: dLambdaMax k topEigenValues

0 errors ✔ | 0 warnings ✔ | 1 note ✖

Sun Jan 31 10:42:04 2021

── R CMD check results ────────────────────────────────────── gac 0.0.90018 ──── Duration: 6m 31.2s

❯ checking R code for possible problems ... NOTE doKSpectral: no visible binding for global variable ‘topEigenValues’ doKSpectral: no visible binding for global variable ‘k’ doKSpectral: no visible binding for global variable ‘dLambdaMax’ Undefined global functions or variables: dLambdaMax k topEigenValues

Sun Jan 17 12:04:21 2021

── R CMD check results ────────────────────────────────────── gac 0.0.90017 ──── Duration: 6m 40.1s

❯ checking installed package size ... NOTE installed size is 7.7Mb sub-directories of 1Mb or more: data 1.7Mb extdata 4.8Mb

❯ checking dependencies in R code ... NOTE Package in Depends field not imported from: ‘circlize’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached.

❯ checking R code for possible problems ... NOTE HeatmapCNR: no visible global function definition for ‘gpar’ doKSpectral: no visible binding for global variable ‘topEigenValues’ doKSpectral: no visible binding for global variable ‘k’ doKSpectral: no visible binding for global variable ‘dLambdaMax’ Undefined global functions or variables: dLambdaMax gpar k topEigenValues

0 errors ✔ | 0 warnings ✔ | 3 notes ✖

Mon Dec 14 19:08:13 2020

── R CMD check results ────────────────────────────────────── gac 0.0.90014 ──── Duration: 6m 25.4s

❯ checking whether package ‘gac’ can be installed ... WARNING W checking whether package ‘gac’ can be installed (16.6s) Found the following significant warnings: Warning: replacing previous import ‘GenomicRanges::union’ by ‘dplyr::union’ when loading ‘gac’ Warning: replacing previous import ‘GenomicRanges::intersect’ by ‘dplyr::intersect’ when loading ‘gac’ Warning: replacing previous import ‘GenomicRanges::setdiff’ by ‘dplyr::setdiff’ when loading ‘gac’ See ‘/private/var/folders/f7/v_vt_5bn07z9tljnh56n9crnrzdbg9/T/Rtmpuo5hhr/gac.Rcheck/00install.out’ for details. ❯ checking installed package size ... NOTE installed size is 7.5Mb sub-directories of 1Mb or more: data 1.7Mb extdata 4.8Mb

❯ checking R code for possible problems ... NOTE HeatmapCNR: no visible global function definition for ‘gpar’ doKSpectral: no visible binding for global variable ‘topEigenValues’ doKSpectral: no visible binding for global variable ‘k’ doKSpectral: no visible binding for global variable ‘dLambdaMax’ Undefined global functions or variables: dLambdaMax gpar k topEigenValues

❯ checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘cnr.rds’

0 errors ✔ | 1 warning ✖ | 3 notes ✖

Mon Oct 5 21:02:11 2020

── R CMD check results ─────────────────────────────────────── gac 0.0.9009 ──── Duration: 3m 18.8s

❯ checking installed package size ... NOTE installed size is 8.4Mb sub-directories of 1Mb or more: data 2.7Mb extdata 4.8Mb

❯ checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘cnr.rds’

0 errors ✔ | 0 warnings ✔ | 2 notes ✖

Tue Sep 15 18:53:38 2020

• checking package dependencies ... ERROR Namespace dependency not required: ‘SCclust’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. * DONE Status: 1 ERROR

Duration: 3m 15.3s

❯ checking installed package size ... NOTE installed size is 8.9Mb sub-directories of 1Mb or more: data 2.7Mb doc 1.2Mb extdata 4.8Mb

❯ checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘cnr.rds’ ‘dna.rds’

0 errors ✔ | 0 warnings ✔ | 2 notes ✖

• This work is still on alpha-release.

SingerLab/gac documentation built on March 23, 2024, 5:15 a.m.