Building Enrichment map from a gprofiler R package

[Moutaz Helal]

Hello,

Thanks for helping me, I am using Cytoscape Version: 3.8.0 to build an Enrichment map after I used  a gprofiler2  R package to generate GO terms. I used the following chunk of code 

gostres0 <- gost(query = rownames(sc_C0_markers),
                organism = "mmusculus", ordered_query = TRUE,
                multi_query = FALSE, significant = TRUE, exclude_iea = TRUE,
                measure_underrepresentation = FALSE, evcodes = TRUE,
                user_threshold = 0.05, correction_method = "g_SCS",
                domain_scope = "annotated", custom_bg = NULL,
                numeric_ns = "", sources = "GO", as_short_link = FALSE)
sc_C0gprofiler_results <- gostres0$result


## Order the results by p-adjusted value
sc_C0gprofiler_results <- sc_C0gprofiler_results[order(sc_C0gprofiler_results$p_value), ]
gostplot(gostres0, capped = TRUE, interactive = TRUE)
p0 <- gostplot(gostres0, capped = TRUE, interactive = FALSE)
pdf("sc_C0__gplot.pdf", width = 11, height =11 )


publish_gostplot(p0, highlight_terms = sc_C0gprofiler_results$term_id[1:19],
                       width = 20, height = 20, filename = NULL)
 dev.off()
 # get the GEM file for cytoscape
 gem0 <- gostres0$result[,c("term_id", "term_name", "p_value", "intersection")]
 colnames(gem0) <- c("GO.ID", "Description", "p.Val", "Genes")
 gem0$FDR <- gem0$p.Val
 write.table(gem0, file = "c0gProfiler_gem.txt", sep = "\t", quote = F, row.names = F)

then I downloaded GMT file from gprofiler website,  when I attempted to build the map it gave me the following Error 

please find files attached if this would help,

gprofiler output written from R (c0gProfiler_gem.txt)

gprofiler GMT file ( gprofiler_full_mmusculus.name.gmt)

Thanks very much