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Sage-Bionetworks / synapser

An R package providing programmatic access to Synapse
Apache License 2.0
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Not able to authenticate using all possible ways #304

Closed guodudou closed 1 year ago

guodudou commented 2 years ago

Operating system

Windows 10 R is installed in ~/laptop/OneDrive/Documents/R/R-4.1.3 .synapseConfig is saved under ~

Description of the problem

I registered a synapse account, and installed "synapser" package in R . I created a token with full permission including view, and tried all the ways mentioned in https://r-docs.synapse.org/articles/manageSynapseCredentials.html#kimyen-ladia to authenticate using synLogin(), but failed with error message "Error in value[3L] : HTTPSConnectionPool(host='repo-prod.prod.sagebase.org', port=443): Max retries exceeded with url: /repo/v1/userProfile (Caused by SSLError(SSLError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed (_ssl.c:852)'),))"

Expected behavior

Be able to authenticate

Actual behavior

failed

Output of sessionInfo()

sessionInfo() R version 4.1.3 (2022-03-10) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 10 x64 (build 19043)

Matrix products: default

locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252 LC_NUMERIC=C
[5] LC_TIME=English_United States.1252

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

other attached packages: [1] synapser_0.11.7

loaded via a namespace (and not attached): [1] Rcpp_1.0.8.3 knitr_1.38 magrittr_2.0.2 tidyselect_1.1.2 R6_2.5.1 rlang_1.0.2 fastmap_1.1.0
[8] fansi_1.0.3 dplyr_1.0.8 tools_4.1.3 xfun_0.30 utf8_1.2.2 cli_3.2.0 DBI_1.1.2
[15] htmltools_0.5.2 ellipsis_0.3.2 yaml_2.3.5 assertthat_0.2.1 digest_0.6.29 tibble_3.1.6 lifecycle_1.0.1
[22] crayon_1.5.1 zip_2.2.0 PythonEmbedInR_0.8.4 purrr_0.3.4 codetools_0.2-18 vctrs_0.3.8 glue_1.6.2
[29] evaluate_0.15 rmarkdown_2.13 openxlsx_4.2.5 stringi_1.7.6 compiler_4.1.3 pillar_1.7.0 pack_0.1-1
[36] generics_0.1.2 pkgconfig_2.0.3

Thank you very much! Wendy

thomasyu888 commented 1 year ago

Apologies for the large delays in response. @guodudou . This error seems to be caused by the synapse backend being blocked. Please see this to see if your institution can allow for these IP addresses. https://help.synapse.org/docs/Synapse-Infrastructure.2835382273.html

thomasyu888 commented 1 year ago

Going to close this for now - please re-open if you still encounter this issue. Thanks!