Error in train(..., self = self) : unused argument (list(NULL, "column", "row", "text")) #305
Comments
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Hi, Did you resolved this problem? I'm going through the same thing. |
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Can you post a stack trace/traceback? |
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I'm using heatmaply version 1.5.0 My sessionInfo() Matrix products: default locale: attached base packages: other attached packages: loaded via a namespace (and not attached):
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That is not a stack trace or traceback. Please post the output of |
traceback()
11: guides$train(scales, theme$legend.direction, plot$labels)
10: get_gdefs_ggproto(npscales$scales, theme, plot, layers)
9: gg2list(p, width = width, height = height, tooltip = tooltip,
dynamicTicks = dynamicTicks, layerData = layerData, originalData = originalData,
source = source, ...)
8: ggplotly.ggplot(p, dynamicTicks = dynamicTicks, tooltip = "text",
height = height, width = width, source = plotly_source)
7: ggplotly(p, dynamicTicks = dynamicTicks, tooltip = "text", height = height,
width = width, source = plotly_source)
6: layout(., showlegend = FALSE)
5: ggplotly(p, dynamicTicks = dynamicTicks, tooltip = "text", height = height,
width = width, source = plotly_source) %>% layout(showlegend = FALSE)
4: heatmaply.heatmapr(hm, colors = colors, limits = limits, scale_fill_gradient_fun = scale_fill_gradient_fun,
grid_color = grid_color, grid_gap = grid_gap, row_text_angle = row_text_angle,
column_text_angle = column_text_angle, subplot_margin = subplot_margin,
row_dend_left = row_dend_left, xlab = xlab, ylab = ylab,
main = main, titleX = titleX, titleY = titleY, hide_colorbar = hide_colorbar,
key.title = key.title, return_ppxpy = return_ppxpy, margins = margins,
row_side_palette = row_side_palette, col_side_palette = col_side_palette,
heatmap_layers = heatmap_layers, side_color_layers = side_color_layers,
dendrogram_layers = dendrogram_layers, ColSideColors = ColSideColors,
RowSideColors = RowSideColors, branches_lwd = branches_lwd,
label_names = label_names, plot_method = plot_method, draw_cellnote = draw_cellnote,
cellnote_textposition = cellnote_textposition, cellnote_size = cellnote_size,
cellnote_color = cellnote_color, fontsize_row = fontsize_row,
fontsize_col = fontsize_col, subplot_widths = subplot_widths,
subplot_heights = subplot_heights, colorbar_len = colorbar_len,
colorbar_thickness = colorbar_thickness, colorbar_xanchor = colorbar_xanchor,
colorbar_yanchor = colorbar_yanchor, colorbar_xpos = colorbar_xpos,
colorbar_ypos = colorbar_ypos, showticklabels = showticklabels,
dynamicTicks = dynamicTicks, grid_size = grid_size, node_type = node_type,
point_size_name = point_size_name, label_format_fun = label_format_fun,
...
3: heatmaply(hm, colors = colors, limits = limits, scale_fill_gradient_fun = scale_fill_gradient_fun,
grid_color = grid_color, grid_gap = grid_gap, row_text_angle = row_text_angle,
column_text_angle = column_text_angle, subplot_margin = subplot_margin,
row_dend_left = row_dend_left, xlab = xlab, ylab = ylab,
main = main, titleX = titleX, titleY = titleY, hide_colorbar = hide_colorbar,
key.title = key.title, return_ppxpy = return_ppxpy, margins = margins,
row_side_palette = row_side_palette, col_side_palette = col_side_palette,
heatmap_layers = heatmap_layers, side_color_layers = side_color_layers,
dendrogram_layers = dendrogram_layers, ColSideColors = ColSideColors,
RowSideColors = RowSideColors, branches_lwd = branches_lwd,
label_names = label_names, plot_method = plot_method, draw_cellnote = draw_cellnote,
cellnote_textposition = cellnote_textposition, cellnote_size = cellnote_size,
cellnote_color = cellnote_color, fontsize_row = fontsize_row,
fontsize_col = fontsize_col, subplot_widths = subplot_widths,
subplot_heights = subplot_heights, colorbar_len = colorbar_len,
colorbar_thickness = colorbar_thickness, colorbar_xanchor = colorbar_xanchor,
colorbar_yanchor = colorbar_yanchor, colorbar_xpos = colorbar_xpos,
colorbar_ypos = colorbar_ypos, showticklabels = showticklabels,
dynamicTicks = dynamicTicks, grid_size = grid_size, node_type = node_type,
point_size_name = point_size_name, label_format_fun = label_format_fun,
...
2: heatmaply.default(mtcars, k_row = 3, k_col = 2)
1: heatmaply(mtcars, k_row = 3, k_col = 2)rlang::last_error() |
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Are you sure that's the full output of traceback? It doesn't seem to match the previous error you posted |
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I restart the Rstudio. It is the full output of traceback(). |
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Can't reproduce the error on my end, only suggestion I have for now is to update plotly, I'm running 4.10.4 to your 4.10.2 |
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I reinstalled plotly. Now it's running successfully. Thank you! |
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Great cheers, sorry for the delay looking at this, just missed the first notification |
Describe the bug
I'm getting an error when running the heatmaply function on the toy example, unless I use the plot_method = "plotly"
To Reproduce
heatmaply(mtcars) # produces the error (see title of this bug report)
heatmaply(mtcars, plot_method = "plotly") # works fine
Additional context
Here is my session.Info:
sessionInfo()
R version 4.1.2 (2021-11-01)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)
Matrix products: default
BLAS/LAPACK: /usr/lib64/libopenblasp-r0.3.3.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8
[6] LC_MESSAGES=en_US.UTF-8 LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] grid parallel stats graphics grDevices utils datasets methods base
other attached packages:
[1] heatmaply_1.5.0 viridis_0.6.4 viridisLite_0.4.2 plotly_4.10.2 rsvg_2.5.0 ggvenn_0.1.10
[7] ggforce_0.4.1 xml2_1.3.6 tidygraph_1.2.3 ggraph_2.1.0 corrplot_0.92 RColorBrewer_1.1-3
[13] clusterProfiler_4.8.3 ggrepel_0.9.5 readxl_1.4.3 doParallel_1.0.17 iterators_1.0.14 foreach_1.5.2
[19] DescTools_0.99.50 survival_3.5-7 labelled_2.12.0 Epi_2.47.1 haven_2.5.4 janitor_2.2.0
[25] SomaDataIO_6.0.0 lubridate_1.9.3 forcats_1.0.0 stringr_1.5.1 dplyr_1.1.4 purrr_1.0.2
[31] readr_2.1.5 tidyr_1.3.1 tibble_3.2.1 ggplot2_3.5.0 tidyverse_2.0.0.9000
loaded via a namespace (and not attached):
[1] shadowtext_0.1.2 fastmatch_1.1-4 systemfonts_1.0.4 plyr_1.8.8 igraph_1.5.1
[6] lazyeval_0.2.2 splines_4.1.2 crosstalk_1.2.0 BiocParallel_1.34.2 GenomeInfoDb_1.36.3
[11] digest_0.6.34 ca_0.71.1 htmltools_0.5.7 yulab.utils_0.1.0 GOSemSim_2.26.1
[16] GO.db_3.17.0 fansi_1.0.6 magrittr_2.0.3 memoise_2.0.1 tzdb_0.4.0
[21] etm_1.1.1 Biostrings_2.68.1 graphlayouts_1.0.1 vroom_1.6.5 svglite_2.1.1
[26] timechange_0.3.0 enrichplot_1.20.3 colorspace_2.1-0 blob_1.2.4 textshaping_0.3.7
[31] crayon_1.5.2 RCurl_1.98-1.12 jsonlite_1.8.8 scatterpie_0.2.1 Exact_3.2
[36] zoo_1.8-12 ape_5.7-1 glue_1.7.0 polyclip_1.10-4 registry_0.5-1
[41] gtable_0.3.4 zlibbioc_1.46.0 XVector_0.40.0 webshot_0.5.5 BiocGenerics_0.46.0
[46] scales_1.3.0 DOSE_3.26.1 mvtnorm_1.2-3 DBI_1.2.2 Rcpp_1.0.11
[51] cmprsk_2.2-11 gridGraphics_0.5-1 tidytree_0.4.5 bit_4.0.5 proxy_0.4-27
[56] stats4_4.1.2 htmlwidgets_1.6.4 httr_1.4.7 fgsea_1.26.0 ellipsis_0.3.2
[61] pkgconfig_2.0.3 farver_2.1.1 utf8_1.2.4 labeling_0.4.3 ggplotify_0.1.2
[66] tidyselect_1.2.0 rlang_1.1.3 reshape2_1.4.4 AnnotationDbi_1.62.2 munsell_0.5.0
[71] cellranger_1.1.0 tools_4.1.2 cachem_1.0.8 downloader_0.4 cli_3.6.2
[76] generics_0.1.3 RSQLite_2.3.5 gson_0.1.0 fastmap_1.1.1 yaml_2.3.8
[81] ragg_1.2.7 ggtree_3.8.2 bit64_4.0.5 fs_1.6.3 dendextend_1.17.1
[86] KEGGREST_1.40.0 rootSolve_1.8.2.4 nlme_3.1-164 aplot_0.2.1 compiler_4.1.2
[91] rstudioapi_0.15.0 png_0.1-8 e1071_1.7-13 treeio_1.24.3 tweenr_2.0.2
[96] stringi_1.8.3 lattice_0.20-45 Matrix_1.4-0 vctrs_0.6.5 pillar_1.9.0
[101] lifecycle_1.0.3 data.table_1.14.8 cowplot_1.1.1 bitops_1.0-7 seriation_1.5.4
[106] lmom_3.0 patchwork_1.1.3 qvalue_2.32.0 R6_2.5.1 TSP_1.2-4
[111] gridExtra_2.3 IRanges_2.34.1 gld_2.6.6 codetools_0.2-19 assertthat_0.2.1
[116] boot_1.3-30 MASS_7.3-60.0.1 withr_2.5.1 S4Vectors_0.38.2 GenomeInfoDbData_1.2.10
[121] mgcv_1.9-1 expm_0.999-7 hms_1.1.3 ggfun_0.1.3 HDO.db_0.99.1
[126] class_7.3-22 snakecase_0.11.1 numDeriv_2016.8-1.1 Biobase_2.60.0
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