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kevinblighe / EnhancedVolcano

Publication-ready volcano plots with enhanced colouring and labeling
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Issue exporting EnhancedVolcano with ggsave #61

Closed EidrianGM closed 3 years ago

EidrianGM commented 3 years ago

I was trying to save the plot via ggsave and got the following error

volcano <- EnhancedVolcano(resultsDF,x = 'log2FoldChange',y = 'padj',lab = resultsDF$gene_name)
ggsave(outFile, plot = volcano20, device = 'svg', scale = 1, dpi = 300,width = 15,height = 15,units = 'cm')

Error: geom_text requires the following missing aesthetics: label Run rlang::last_error() to see where the error occurred.

R-Session

R version 4.0.2 (2020-06-22) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 20.04.1 LTS

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=en_US.UTF-8 LC_NUMERIC=C LC_TIME=es_ES.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=es_ES.UTF-8
[6] LC_MESSAGES=en_US.UTF-8 LC_PAPER=es_ES.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=es_ES.UTF-8 LC_IDENTIFICATION=C

attached base packages: [1] grid splines parallel stats4 stats graphics grDevices utils datasets methods base

other attached packages: [1] gdtools_0.2.2 circlize_0.4.10 scatterplot3d_0.3-41 RColorBrewer_1.1-2 ggfortify_0.4.10
[6] ComplexHeatmap_2.4.3 edgeR_3.30.3 limma_3.44.3 NOISeq_2.31.0 Matrix_1.2-18
[11] DESeq2_1.28.1 SummarizedExperiment_1.18.2 DelayedArray_0.14.1 matrixStats_0.57.0 Biobase_2.48.0
[16] GenomicRanges_1.40.0 GenomeInfoDb_1.24.2 IRanges_2.22.2 S4Vectors_0.26.1 BiocGenerics_0.34.0
[21] EnhancedVolcano_1.6.0 ggrepel_0.8.2 ggplot2_3.3.2

loaded via a namespace (and not attached): [1] tidyr_1.1.2 bit64_4.0.5 BiocManager_1.30.10 blob_1.2.1 GenomeInfoDbData_1.2.3 Rsamtools_2.4.0
[7] pillar_1.4.6 RSQLite_2.2.1 lattice_0.20-41 glue_1.4.2 digest_0.6.25 XVector_0.28.0
[13] colorspace_1.4-1 XML_3.99-0.5 pkgconfig_2.0.3 GetoptLong_1.0.3 genefilter_1.70.0 zlibbioc_1.34.0
[19] purrr_0.3.4 xtable_1.8-4 scales_1.1.1 svglite_1.2.3.2 BiocParallel_1.22.0 tibble_3.0.3
[25] annotate_1.66.0 farver_2.0.3 generics_0.0.2 ellipsis_0.3.1 withr_2.3.0 survival_3.2-7
[31] magrittr_1.5 crayon_1.3.4 memoise_1.1.0 tools_4.0.2 GlobalOptions_0.1.2 lifecycle_0.2.0
[37] stringr_1.4.0 munsell_0.5.0 locfit_1.5-9.4 cluster_2.1.0 AnnotationDbi_1.50.3 Biostrings_2.56.0
[43] compiler_4.0.2 systemfonts_0.3.2 rlang_0.4.7 RCurl_1.98-1.2 rstudioapi_0.11 rjson_0.2.20
[49] labeling_0.3 bitops_1.0-6 gtable_0.3.0 DBI_1.1.0 R6_2.4.1 GenomicAlignments_1.24.0 [55] gridExtra_2.3 dplyr_1.0.2 rtracklayer_1.48.0 bit_4.0.4 clue_0.3-57 shape_1.4.5
[61] stringi_1.5.3 Rcpp_1.0.5 vctrs_0.3.4 geneplotter_1.66.0 png_0.1-7 tidyselect_1.1.0

EidrianGM commented 3 years ago

Okey sorry my fault, a problem with variables in the environment, better to remove this issue hehe