[Joise G]

Hello,

I am trying to understand what the best option (out of the ones listed here https://genome.ucsc.edu/goldenPath/help/mirror.html) is if I want to create my own local genome browser to visualize my own genomic variation data.

To visualize my own database, do I have to do the 'manual installation' or would it be possible to do with the GBiC installer?

Actually，I have tried to use the manual installation these days, (refer to the URL: https://genomewiki.ucsc.edu/index.php/Browser_Installation), but when I got to the step of configuring the Apache server, I opened “http://localhost/cgi-bin/printEnv.pl” and it showed "The requested URL /cgi-bin/printEnv.pl was not found on this server. "I am not sure what went wrong. Perhaps there is an updated tutorial or video tutorial available?

Thanks,

Joise

[Luis Nassar]

Hi, Joise.

Either GBiC or GBiB would be your best bet, but first, I want to ensure you need to mirror the software. You can add your own data/annotations and custom assemblies to the UCSC Genome Browser by using hubs (https://genome.ucsc.edu/cgi-bin/hgHubConnect?#hubDeveloper) - or just annotations using custom tracks (https://genome.ucsc.edu/cgi-bin/hgCustom). Typically, mirror installations are for privacy, speed, internal use by a team, or a few other situations. This may apply to you, but we want to ensure that using hubs or custom tracks on our main site is much simpler.

That aside, the easiest way to install a mirror would be to use a virtual image. You can do this via Docker (https://genome.ucsc.edu/goldenPath/help/mirror.html#docker-installation-instructions) or GBiB (https://genome.ucsc.edu/goldenPath/help/gbib.html). If you instead want to install the software, then you can use GBiC (https://genome.ucsc.edu/goldenPath/help/gbic.html).

Regarding the error you report, an engineer shared the following:

The printEnv.pl error message suggests that the file "printEnv.pl" is not in the server's cgi-bin directory. If the user wants to put a copy of printEnv.pl in their cgi-bin directory, and make sure it has the execute bit set, then they should be able to load http://localhost/cgi-bin/printEnv.pl.

Don't hesitate to reach out further if you need assistance deciding or troubleshooting.

--

---
You received this message because you are subscribed to the Google Groups "UCSC Genome Browser Public Support" group.
To unsubscribe from this group and stop receiving emails from it, send an email to genome+un...@soe.ucsc.edu.
To view this discussion visit https://groups.google.com/a/soe.ucsc.edu/d/msgid/genome/CAGL9TfivJr9F0p2e91idjQDh73B7ZqoSQQ6JfR8GnNpBR4RBUg%40mail.gmail.com.

--

I hope this is helpful. Please include gen...@soe.ucsc.edu in any replies to ensure visibility by the team. All messages sent to that address are archived on our public forum. If your question includes sensitive information, you may send it instead to genom...@soe.ucsc.edu.

Lou Nassar
UCSC Genomics Institute