GBrowser docker error

[Tiago Minuzzi F. da F. Gomes]

Hello.

I'm trying to install Genome Browser using a dockerfile but it's returning the error:

rsync: [Receiver] failed to connect to hgdownload-euro.soe.ucsc.edu (129.70.40.37): Connection timed out (110)

rsync error: error in socket IO (code 10) at clientserver.c(139) [Receiver=3.2.7]

Exit error 10 occurred on line 1

The UCSC Genome Browser installation script exited with an error.

Please contact us at genome...@soe.ucsc.edu and send us an output log

of the command prefixed with "bash -x", e.g.

bash -x browserSetup.sh install 2>&1 > install.log

The full log is attached.

Regards.

Tiago Minuzzi

Bioinformata

Centro de Saúde Pública de Precisão - Fiocruz/PR.

Doutor em Genética e Biologia Molecular, PPGBM/UFRGS.

Mestre em Biologia Celular e Molecular, PPGBM/UFRGS.

[Maximilian Haeussler]

Hi Tiago,

Can I ask why you want your own UCSC Browser? If it because you have protected human data, you want to load your own genome assembly or for other reasons? 

from your installation log, it looks as if your server cannot connect to hgdownload-euro. Can you run this command to check if rsync works from your computer? If not, it's probably blocked somewhere by your institution. Rsync requires port 873.

$ rsync hgdownload-euro.soe.ucsc.edu::cgi-bin

Sidenote: interesting, Europe is closer to Sao Palo than San Francisco: https://wondernetwork.com/pings/Sao%20Paulo

best

Max

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