Issue uploading a test file to Phinch.org

PitchInteractiveInc / Phinch

Phinch is an open-source framework for visualizing biological data, funded by a grant from the Alfred P. Sloan foundation. This project represents an interdisciplinary collaboration between Pitch Interactive, a data visualization studio in Oakland, CA, and biological researchers at UC Riverside.

http://phinch.org/

BSD 2-Clause "Simplified" License

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Issue uploading a test file to Phinch.org #82

Closed molikd closed 6 years ago

molikd commented 6 years ago

Hello,

I was looking at Phinch.org and thought I'd upload a test file, Phinch.org does not upload the file correctly and I get the spiny Phinch.org dots of death when I do so.

I've tested the file for correct format:

 $ biom validate-table  -i test.tx.biom 

The input file is a valid BIOM-formatted file.

I've tried:

Google Chrome is up to date -- Version 62.0.3202.94 (Official Build) (64-bit)
Chromium -- Version 62.0.3171.0 (Developer Build) (64-bit)
Firefox -- 57.0 (64-bit)

All on Mac OSX 10.13.1

Aforementioned biom here: test.tx.biom.txt Although I had to add a .txt on the end to get it to upload.

molikd commented 6 years ago

Should also mention file was generated with Mothur version=1.39.5

nthitz commented 6 years ago

Looking at your test file I think this is related to https://github.com/PitchInteractiveInc/Phinch/issues/81 . It looks like your columns have null metadata which currently breaks our tool. You could convert all instances of "metadata": null to "metadata": [] and things should work better. In the future this won't be needed but for now it is.

molikd commented 6 years ago

That's seems to have done it. Looks like it's working now. Seeing as #81 already talks about this, I'll close this ticket out. Thank you.