Open DUAN-GAO opened 1 month ago
Dear StringDB team: I run below code, it went all fine until the last line, could u help, many thanks. And I tried the solution in https://github.com/jeroen/curl/issues/193, it didnot work.
`string_db <- STRINGdb$new( version="11", species=10116, score_threshold=700) diff_exp_example1 = read.csv("D2_Model_vs_D2_EPC.glmLRT.stringDB.csv")
example1_mapped <- string_db$map(diff_exp_example1, "genes", removeUnmappedRows = TRUE )
hit = example1_mapped$STRING_id string_db$plot_network(hit) # error shown below ` Schannel: CertGetCertificateChain trust error CERT_TRUST_IS_UNTRUSTED_ROOT
Sessioninfo as follows:
sessionInfo() R version 4.2.2 (2022-10-31 ucrt) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 10 x64 (build 19041)
Matrix products: default
locale: [1] LC_COLLATE=Chinese (Simplified)_China.utf8 [2] LC_CTYPE=Chinese (Simplified)_China.utf8 [3] LC_MONETARY=Chinese (Simplified)_China.utf8 [4] LC_NUMERIC=C [5] LC_TIME=Chinese (Simplified)_China.utf8
attached base packages: [1] stats graphics grDevices utils datasets methods [7] base
other attached packages: [1] visNetwork_2.1.2 STRINGdb_2.10.1
loaded via a namespace (and not attached): [1] Rcpp_1.0.13 compiler_4.2.2 RColorBrewer_1.1-3 [4] plyr_1.8.9 bitops_1.0-8 tools_4.2.2 [7] digest_0.6.37 bit_4.0.5 jsonlite_1.8.8 [10] RSQLite_2.3.7 memoise_2.0.1 lifecycle_1.0.4 [13] pkgconfig_2.0.3 png_0.1-8 rlang_1.1.4 [16] igraph_2.0.3 DBI_1.2.3 cli_3.6.3 [19] rstudioapi_0.16.0 proto_1.0.0 fastmap_1.2.0 [22] vctrs_0.6.5 htmlwidgets_1.6.4 gtools_3.9.5 [25] caTools_1.18.3 bit64_4.0.5 sqldf_0.4-11 [28] plotrix_3.8-4 hash_2.2.6.3 gsubfn_0.7 [31] blob_1.2.4 magrittr_2.0.3 gplots_3.1.3.1 [34] htmltools_0.5.8.1 KernSmooth_2.23-24 RCurl_1.98-1.16 [37] cachem_1.1.0 chron_2.3-61
Dear StringDB team: I run below code, it went all fine until the last line, could u help, many thanks. And I tried the solution in https://github.com/jeroen/curl/issues/193, it didnot work.
`string_db <- STRINGdb$new( version="11", species=10116, score_threshold=700) diff_exp_example1 = read.csv("D2_Model_vs_D2_EPC.glmLRT.stringDB.csv")
example1_mapped <- string_db$map(diff_exp_example1, "genes", removeUnmappedRows = TRUE )
hit = example1_mapped$STRING_id string_db$plot_network(hit) # error shown below ` Schannel: CertGetCertificateChain trust error CERT_TRUST_IS_UNTRUSTED_ROOT
Sessioninfo as follows:
Matrix products: default
locale: [1] LC_COLLATE=Chinese (Simplified)_China.utf8 [2] LC_CTYPE=Chinese (Simplified)_China.utf8
[3] LC_MONETARY=Chinese (Simplified)_China.utf8 [4] LC_NUMERIC=C
[5] LC_TIME=Chinese (Simplified)_China.utf8
attached base packages: [1] stats graphics grDevices utils datasets methods
[7] base
other attached packages: [1] visNetwork_2.1.2 STRINGdb_2.10.1
loaded via a namespace (and not attached): [1] Rcpp_1.0.13 compiler_4.2.2 RColorBrewer_1.1-3 [4] plyr_1.8.9 bitops_1.0-8 tools_4.2.2
[7] digest_0.6.37 bit_4.0.5 jsonlite_1.8.8
[10] RSQLite_2.3.7 memoise_2.0.1 lifecycle_1.0.4
[13] pkgconfig_2.0.3 png_0.1-8 rlang_1.1.4
[16] igraph_2.0.3 DBI_1.2.3 cli_3.6.3
[19] rstudioapi_0.16.0 proto_1.0.0 fastmap_1.2.0
[22] vctrs_0.6.5 htmlwidgets_1.6.4 gtools_3.9.5
[25] caTools_1.18.3 bit64_4.0.5 sqldf_0.4-11
[28] plotrix_3.8-4 hash_2.2.6.3 gsubfn_0.7
[31] blob_1.2.4 magrittr_2.0.3 gplots_3.1.3.1
[34] htmltools_0.5.8.1 KernSmooth_2.23-24 RCurl_1.98-1.16
[37] cachem_1.1.0 chron_2.3-61