GEOquery not responding, Error in open.connection(x, "rb") : schannel: next InitializeSecurityContext failed: SEC_E_ILLEGAL_MESSAGE (0x80090326) - This error usually occurs when a fatal SSL/TLS ale
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Entering edit mode
moiz_aftab • 0
@26c106df
Last seen 6 weeks ago
Turkey

Hi, Could you please help me with the following error. I am using the lastest version of R (4.2.1) and Bioconductor version 3.15 (BioCManager 1.30.18). I have never had this problem before, but my institution uses Windows 7 and over there this problem keeps on showing and i could not find a solution. When i load GEOquery (2.64.2) and try to connect to the database by using the getGEO function, this error arises;

Error in open.connection(x, "rb") : schannel: next InitializeSecurityContext failed: SEC_E_ILLEGAL_MESSAGE (0x80090326) - This error usually occurs when a fatal SSL/TLS alert is received (e.g. handshake failed).

getGEO("GSE5390")

Error in open.connection(x, "rb") : schannel: next InitializeSecurityContext failed: SEC_E_ILLEGAL_MESSAGE (0x80090326) - This error usually occurs when a fatal SSL/TLS alert is received (e.g. handshake failed).

Mysession info is as follows and the error message is above.

sessionInfo() R version 4.2.1 (2022-06-23 ucrt) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 7 x64 (build 7601) Service Pack 1

Matrix products: default

locale: [1] LC_COLLATE=Turkish_Turkey.1254 LC_CTYPE=Turkish_Turkey.1254
[3] LC_MONETARY=Turkish_Turkey.1254 LC_NUMERIC=C
[5] LC_TIME=Turkish_Turkey.1254

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

other attached packages: [1] GEOquery_2.64.2 Biobase_2.56.0 BiocGenerics_0.42.0 BiocVersion_3.15.2 [5] BiocManager_1.30.18

loaded via a namespace (and not attached): [1] xml2_1.3.3 magrittr_2.0.3 hms_1.1.2 tidyselect_1.1.2 [5] R6_2.5.1 rlang_1.0.6 fansi_1.0.3 dplyr_1.0.10
[9] tools_4.2.1 data.table_1.14.2 utf8_1.2.2 cli_3.4.1
[13] ellipsis_0.3.2 tibble_3.1.8 lifecycle_1.0.2 purrr_0.3.4
[17] readr_2.1.3 tzdb_0.3.0 tidyr_1.2.1 vctrs_0.4.2
[21] curl_4.3.2 glue_1.6.2 limma_3.52.4 compiler_4.2.1
[25] pillar_1.8.1 generics_0.1.3 pkgconfig_2.0.3
Warning message: In for (f in filters) { : kullanılmayan bağlantı kapatılıyor 3 (https://ftp.ncbi.nlm.nih.gov/geo/series/GSE5nnn/GSE5390/matrix/) (closing unused connection 3)

```

Any help to fix this would be highly appreciated. Thank you

SEC_E_ILLEGAL_MESSAGE(0x80090326) handshakefailed • 442 views
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Entering edit mode
@james-w-macdonald-5106
Last seen 1 day ago
United States

Try adding the following to your .Renviron file

CURL_SSL_BACKEND=openssl

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