EPI2ME Desktop Use

[Ceres90]

I may be using the agent incorrectly, but when i try to use the desktop agent with piranha:

the barcodes input section asks for a csv file but you can only select a directory , this seems to cause an issue when you try to run the workflow... am I doing something incorrectly?

[rmcolq]

Hi @Ceres90, what version of EPI2ME desktop are you using and on which operating system? It works fine for me with latest piranha, but I can't download the latest version of EPI2ME desktop as it seems to be broken for Mac M1. Something might have changed in how EPI2ME parses the config file

[aineniamh]

So I've downloaded the latest on my end here and updated to the latest piranha too and it seems to be working fine and selecting the barcodes file works if you double click on the file (the epi2me interface). This is on a mac though, so it may behave differently on windows? I'll see if we can get this tested on a windows machine

[Ceres90]

Hi Rachel- Thanks for the quick response, I included a screenshot of what I see . Not sure if that helps?

On Fri, Feb 16, 2024 at 6:32 AM aineniamh @.***> wrote:

Screenshot.2024-02-16.at.11.29.40.png (view on web) https://github.com/polio-nanopore/piranha/assets/11678307/47688895-19d0-43c2-97b8-7db8050131a9

So I've downloaded the latest on my end here and updated to the latest piranha too and it seems to be working fine and selecting the barcodes file works if you double click on the file (the epi2me interface). This is on a mac though, so it may behave differently on windows? I'll see if we can get this tested on a windows machine

— Reply to this email directly, view it on GitHub https://github.com/polio-nanopore/piranha/issues/221#issuecomment-1948225703, or unsubscribe https://github.com/notifications/unsubscribe-auth/AWXEGBMH4KDDWTOPOVIZUHDYT47VZAVCNFSM6AAAAABDKY3LZGVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSNBYGIZDKNZQGM . You are receiving this because you were mentioned.Message ID: @.***>

--

Patrick Andersen Senior Scientist Ceres Nanosciences, Inc. 9460 Innovation Blvd. Manassas, VA 20110

www.ceresnano.com

This message may be confidential or privileged. If you are not the intended recipient; any disclosure, copying, or use of the contents is prohibited. If you have received this e-mail in error, please notify us and delete the message without copying or disclosing it.

[Ceres90]

[aineniamh]

Just following up with this, think the issue fell out of our memory! I've pinged @Desperate-Dan as he has a windows system and may be able to confirm what the problem is

[Desperate-Dan]

Hi @Ceres90, it looks like it was a Mac vs Windows issue with input naming in the setup for epi2me. I've made some changes and on my Windows epi2me I can select a specific file for the barcodes.csv now and all appears to be running correctly. Reinstall the workflow and hopefully it'll work for you too!

[Ceres90]

would you be able to take a screen shot of what your layout looks like, I just updated and i am seeing the same issue where i can just select folders not files...

[Ceres90]

found the issue, it appears after the update you also have to go to "switch revision" and change it to "main" and then it should work.

thanks for the fix!

[Desperate-Dan]

Ah great, I was just about to suggest it might be something to do with that! Hope the rest works for you too!