Error Loading Custom Tracks Into Browser

[Marshae Scott]

Hello,

I am attempting to load custom tracks (bam files) into the browser and I keep receiving an error message. I go to the custom tracks tab, paste in my URL from the http site of our remote server that contains the bam files and their indexes. Once I hit submit, I receive the following error after a few seconds:

": TCP non-blocking connect() to mendel.hudsonalpha.org IP 52.119.14.222 timed-out in select() after 10000 milliseconds. A connection timeout means that either the server is offline or its firewall, the UCSC firewall or any router between the two blocks the connection. netConnect() failed Failed to open https://mendel.hudsonalpha.org/Public/mscott/ZMYM4-LHX6_Pool04/ZMYM4_468-472ctrlR1_1.1.bam. If you are able to access the URL with your web browser, please try reloading this page. <br>"

I reached out to my company's IT department, but also wanted to contact you guys as well to see if we could find a fix for this. Thank you in advance!

--

Marshae Scott Simpson

Research Associate, Myers Lab - HudsonAlpha Institute for Biotechnology

msc...@hudsonalpha.org | scottma...@gmail.com

cell: (618) 610-6560

[Hiram Clawson]

Good Morning Marshae:

Something is unusual about the address mendel.hudsonalpha.org

A 'curl -I' on that says it has moved to a different address:

curl -I mendel.hudsonalpha.org

HTTP/1.1 301 Moved Permanently
Date: Thu, 05 Jun 2025 16:31:06 GMT
Server: Apache/2.4.62 (Rocky Linux) OpenSSL/3.0.7
Location: https://mendel.hudsonalpha.org/
Content-Type: text/html; charset=iso-8859-1

And when I instruct 'curl' to follow that redirect, it never
gets an answer:

curl -L -I mendel.hudsonalpha.org

HTTP/1.1 301 Moved Permanently
Date: Thu, 05 Jun 2025 16:31:38 GMT
Server: Apache/2.4.62 (Rocky Linux) OpenSSL/3.0.7
Location: https://mendel.hudsonalpha.org/
Content-Type: text/html; charset=iso-8859-1

And appears to hang up waiting for the redirection, with an eventual timeout:

curl: (28) Failed to connect to mendel.hudsonalpha.org port 443: Connection
timed out

--Hiram

[Christopher Lee]

Hi Marshae and Hiram,

I was able to download the file just fine from my home network:
$ curl https://mendel.hudsonalpha.org/Public/mscott/ZMYM4-LHX6_Pool04/ZMYM4_468-472ctrlR1_1.1.bam
> test.bam
$ gzip -cd test.bam | head
BAM?@HD VN:1.6 SO:coordinate
@SQ SN:chr1 LN:248956422
@SQ SN:chr2 LN:242193529
@SQ SN:chr3 LN:198295559
...

But I was not able to download it from the UCSC network. This looks
like something your system administrators will need to address.

Thanks,
Christopher Lee
UCSC Genomics Institute

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