can not see ref sequence

[ChenxiHuang]

Dear Jbrowse2 developer,

I got this error from JBrowse, here is the stack trace:

Error: problem decompressing block: incorrect gzip header check

../../../node_modules/@gmod/bgzf-filehandle/src/unzip-pako.ts:51:13 (at i ()
../../../node_modules/@gmod/bgzf-filehandle/src/bgzFilehandle.ts:89:34 (at d._readAndUncompressBlock ()
../../../node_modules/@gmod/bgzf-filehandle/src/bgzFilehandle.ts:112:13 (at async d.read ()
../../../node_modules/@gmod/indexedfasta/src/indexedFasta.ts:218:5 (at async l._fetchFromIndexEntry ()
JBrowse 2.11.2

https://xliugroup.com:39000/?session=local-moIaIGLQw2Ncf8C85Cpr8

The file I used:
I download genome file from NCBI, name it MG1363_NC_009004.1.fasta
Then I just changed the ".fasta" to ".fa"

in my server, I used samtools to covert MG1363_NC_009004.1.fa
the command I used:
bgzip -i MG1363_NC_009004.1.fa
samtools faidx MG1363_NC_009004.1.fa.gz

Regards
Chenxi

[cmdcolin]

Hi there,
This is likely something weird with your server side setup. I don't know exactly what but if i for example download your fa.gz, fa.gz.gzi, and .fa.gz.fai files, then load it into my local instance, it works fine. this tends to mean your server is adding some weird HTTP headers to gzip files.

i can see you have something like a REST API serving the files from the URL containing question mark (https://xliugroup.com/shared-files/1380/?MG1363_NC_009004.1.fa.gz)

i think the api might not be responding to the Range header properly perhaps

[cmdcolin]

evidence for the not responding to Range header: the network tab on your website says the entire .fa.gz file is downloaded. the 698kb is the entire size of .fa.gz instead of a requested byte range of it

[ChenxiHuang]

Thank you for letting me know it works at your local instance

there are indeed too many problems if I insist using url from my website
I try to do that because I wanted to make students without bioinformatic background directly use the web interface

But probably this will cost too much effort for me to debug, I will try still to working on this, at the same time, I tried to use the jbrowse cli, but having another problem

here is my config file
config.json

for normal page, it's working
https://xliugroup.com:39000/?session=local-moIaIGLQw2Ncf8C85Cpr8

but for admin page, somethings wrong

I don't understand...