m6anet -train on demo data : indexer out of bound error

GoekeLab / m6anet

Detection of m6A from direct RNA-Seq data

https://m6anet.readthedocs.io/

MIT License

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m6anet -train on demo data : indexer out of bound error #57

Closed JiayiLi21 closed 1 year ago

JiayiLi21 commented 1 year ago

Hi developers, After steps of installation, dataprep, run_inference based on the documentation and your demo data , there is an error in the training session which indicates a common index out of bound issue. I have checked relevant scripts and run the procedure several times ,but cannot figure out what is wrong.Could you please help to solve this problem? Many thanks 截屏2022-11-19 20 20 55

chrishendra93 commented 1 year ago

hi @JiayiLi21 , thanks for reporting this issue. I am a bit occupied at the moment but I will look into this, and get back to you hopefully in the next day or two.

Regards

Christopher Hendra

chrishendra93 commented 1 year ago

hi @JiayiLi21 , I found the error from my end. Sorry it seems that I supply the data.readcount.labelled in the wrong format, if you look at data.index, all transcripts have "." in their names but not in data.readcount.labelled (for example, ENST00000361055 and ENST00000361055.8). I have pushed an updated data.readcount.labelled to the demo folder, check it out and let me know if it works!

JiayiLi21 commented 1 year ago

Thank you@chrishendra93 It works!