Potenial ploting issue inside Rstudio

[Cdk29]

Hi again.

Running the following :

path_img = 'cassava-leaf-disease-classification/train_images/'

#library(data.table)

labels<-read_csv('cassava-leaf-disease-classification//train.csv')
head(labels)

dataloader <- fastai::ImageDataLoaders_from_df(df=labels, path=path_img, bs=8, seed=6,
                                               num_workers=0, 
                                               item_tfms = Resize(448),
                                               batch_tfms = aug_transforms(size=224, min_scale=0.75))

dataloader %>% show_batch()

learnR <- dataloader %>% cnn_learner(xresnet50(), metrics = accuracy,  model_dir="fastai_model/") #prettier

learnR$to_fp16()

learnR$freeze()

learnR %>% lr_find()

learnR %>% plot_lr_find(dpi = 200)

I can knit and got a md document with the graphs. However, running the cells of the rmarkdown document will not output anything below the line Or inside the plots panels. (while it will happen with keras for example).

I do not know for sure if this is a local config problem, or a change introduced by the commit 8594699.

[Cdk29]

Session info :

R version 4.0.2 (2020-06-22)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 20.10

Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0

locale:
[1] LC_CTYPE=fr_FR.UTF-8 LC_NUMERIC=C LC_TIME=fr_FR.UTF-8 LC_COLLATE=fr_FR.UTF-8
[5] LC_MONETARY=fr_FR.UTF-8 LC_MESSAGES=fr_FR.UTF-8 LC_PAPER=fr_FR.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=fr_FR.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] fastai_2.0.3 forcats_0.5.0 stringr_1.4.0 dplyr_1.0.2 purrr_0.3.4 readr_1.4.0 tidyr_1.1.2
[8] tibble_3.0.4 ggplot2_3.3.2 tidyverse_1.3.0

loaded via a namespace (and not attached):
[1] httr_1.4.2 pkgload_1.1.0 jsonlite_1.7.2 modelr_0.1.8 assertthat_0.2.1 cellranger_1.1.0
[7] yaml_2.2.1 remotes_2.2.0 sessioninfo_1.1.1 pillar_1.4.7 backports_1.2.1 lattice_0.20-41
[13] glue_1.4.2 reticulate_1.18-9000 digest_0.6.27 rvest_0.3.6 colorspace_2.0-0 htmltools_0.5.0
[19] Matrix_1.2-18 pkgconfig_2.0.3 devtools_2.3.2 broom_0.7.2 haven_2.3.1 scales_1.1.1
[25] processx_3.4.5 generics_0.1.0 usethis_2.0.0 ellipsis_0.3.1 withr_2.3.0 cli_2.2.0
[31] magrittr_2.0.1 crayon_1.3.4 readxl_1.3.1 memoise_1.1.0 evaluate_0.14 ps_1.5.0
[37] fs_1.5.0 fansi_0.4.1 xml2_1.3.2 pkgbuild_1.1.0 tools_4.0.2 prettyunits_1.1.1
[43] hms_0.5.3 lifecycle_0.2.0 munsell_0.5.0 reprex_0.3.0 callr_3.5.1 compiler_4.0.2
[49] rlang_0.4.9 grid_4.0.2 rstudioapi_0.13 rappdirs_0.3.1 rmarkdown_2.5 testthat_3.0.0
[55] gtable_0.3.0 curl_4.3 DBI_1.1.0 R6_2.5.0 lubridate_1.7.9.2 knitr_1.30
[61] rprojroot_2.0.2 desc_1.2.0 stringi_1.5.3 Rcpp_1.0.5 vctrs_0.3.5 png_0.1-7
[67] dbplyr_2.0.0 tidyselect_1.1.0 xfun_0.19

[turgut090]

Thanks, I am using the following package grid and it has an issue with rmarkdown. This is why you cannot see them (graphs/plots) while executing a cell

library(tiff)
img <- readTIFF(system.file("img", "Rlogo.tiff", package="tiff"))
grid::grid.raster(img)

If you have a library that works for Mac, Linux, Windows we can switch to it.

[Cdk29]

If I come up with an idea I will PR.