getCurrentMap() returns HTTP status was '404 Not Found'

Question

getCurrentMap() returns HTTP status was '404 Not Found'

kcs3 opened this issue 6 years ago · comments

Version: 0.5.2
Date: 2018-07-05

library(HGNChelper)
new.hgnc.table <- getCurrentHumanMap()
Error in file(file, "rt") : cannot open the connection
In addition: Warning message:
In file(file, "rt") :
cannot open URL 'http://www.genenames.org/cgi-bin/hgnc_downloads?col=gd_hgnc_id&col=gd_app_sym&col=gd_prev_sym&col=gd_aliases&status=Approved&status=Entry+Withdrawn&status_opt=2&where=&order_by=gd_hgnc_id&format=text&limit=&hgnc_dbtag=on&submit=submit': HTTP status was '404 Not Found'

Levi Waldron · Answer 1 · Fri Mar 01 2019 02:27:22 GMT+0800 (China Standard Time)

Thanks @kcs3. The HGNC seems to have changed their downloads page. Working on finding the right data again.

Kenneth Smith · Answer 2 · Fri Mar 01 2019 04:41:17 GMT+0800 (China Standard Time)

Thanks, good luck!

Levi Waldron · Answer 3 · Fri Mar 01 2019 05:16:28 GMT+0800 (China Standard Time)

I think this is resolved in 0beff7d (version 0.7.0). The HGNC map is bigger now, I think because the file I use now includes symbols for non-coding RNA, pseudogenes, and some other things (see the "Locus type" help at genenames.org). @kcs3 I would really appreciate it if you could give it a try here and let me know if it passes your sanity check before I upload to CRAN.

Levi Waldron · Answer 4 · Wed Mar 06 2019 01:37:32 GMT+0800 (China Standard Time)

Resolved with 0beff7d, release 0.7.1 was submitted to CRAN this morning.