Can not get the software work

[xushaolin]

I followed your documentation, and get the .json file ( let's call it output.json) by asm2stats.pl, but I don't the next step to visualize that output file, could you please give more info/guide about the detail after I get the .json file, thanks a lot

here is the script that I have tried:
file:///Users/myname/bin/assembly-stats/assembly-stats.html?path=/Users/myname/bin/assembly-stats/json/&assembly=output&view=circle&altView=cumulative&altView=table

btw, the plot from your software is really beautiful
best

[rjchallis]

Hi Shaolin

You'll need to open the file as a webpage to make it work - the file:///Users... shows that you have opened it as a file, so the javascript will not be executed. Exactly how to host it in a local web server varies by OS but from the file path it looks like you are using a Mac so this link may help.

Once you have that set up you'l be able to use a url more like:

http://localhost/~/bin/assembly-stats/assembly-stats.html?path=/~/bin/assembly-stats/json/&assembly=output&view=circle&altView=cumulative&altView=table

[sheinasim]

Hello,

I'm having a similar issue except that I am hosting the file.

I tried running it locally on the example files using this string:

http://localhost/assembly-stats.html?path=json/&assembly=Danaus_plexippus_v3&view=circle&altView=cumulative&altView=table

Where the Danaus_plexippus_v3.assembly-stats.json is in a directory called json which is in the same directory as assembly-stats.html.

This generates icons at the top "circle" "cumulative," and "table" but no plot. I've tried using an absolute path and including the full name of the .json file.

Thanks!

[rjchallis]

Hi

You shouldn't need to change anything in the files for it to work - I just ran git clone https://github.com/rjchallis/assembly-stats in my web root directory then modified your link to include the assembly-stats subdirectory and http://localhost/assembly-stats/assembly-stats.html?path=json/&assembly=Danaus_plexippus_v3&view=circle&altView=cumulative&altView=table worked for me.

Hopefully this will just work, otherwise it should be fairly universal but if you let me know what system you are hosting the page on I can make sure to test on that too. I have plans to rewrite some of this code anyway so it will be useful to know if I need to make changes for it to run on certain systems.

[sheinasim]

Hi!

I'm running it on Windows 10.

I also have access to an ubuntu OS, and I've tried running it on our cluster with no luck.

Thanks!
Sheina

[imneuro]

Hi Richard,

I use windows 7 set up a local host and test it is running well. And I followed your suggestion to put your code in to c:\input\wwwroot. I open http://localhost/assembly-stats/assembly-stats.html?path=json/&assembly=Danaus_plexippus_v3&view=circle&altView=cumulative&altView=table in my chrome browser. In the console, it complains the "GET http://localhost/assembly-stats/json/Danaus_plexippus_v3.assembly-stats.json 404 (Not Found)" . I check the file is at where it is. Do you have any suggestion what I can do next?

Thank you.
Xin

[rjchallis]

Ah, I think I understand these issues now, a 404 error on the JSON file suggests that your Windows web server is not serving .json files by default. You'll need to add a new MIME type (application/json) to your server configuration then it should work as expected. I'm afraid I'm not familiar enough with Windows to suggest how to do this.

[imneuro]

You are right about the MIME type. It works well now!