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qunfengdong / BLCA

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Help~ Python bug #24

Open hiwasax opened 4 years ago

hiwasax commented 4 years ago

Snipaste_2020-05-06_20-44-38

qunfengdong commented 4 years ago

For this error, it seems like your system lacks that shared library. You need to ask the administrator where it is and add it into his $PATH. You can try: 1. Reinstall blca, make sure all packages and dependencies are installed correctly. 2. Ask administrator to install or provide access to libargtable2.so.0. Then add its path to $PATH (or copy it to $PATH).

hiwasax commented 4 years ago

@qunfengdong Thank your for your reply. I have fixed this bug after adding the lib PATH. And, the reason for the Python bug is that wrong label type in taxonomy files. Check your taxonomy files type, no blank, no doule symbol blabla.

qunfengdong commented 4 years ago

We are not sure what you meant by "wrong label type in taxonomy files". Could you please give us an example? Thanks!

hiwasax commented 4 years ago

@qunfengdong image

qunfengdong commented 4 years ago

d: domain - domain bacteria

qunfengdong commented 4 years ago

d:domain, p: phylum, c: class, o:order, f: family, g: genus,

Did you use NCBI 16S database?

qunfengdong commented 4 years ago

If you can send us your query sequence and describe the database you used, we'd like to reproduce your error msg. Please send it to qunfengd@gmail.com. Thanks!

hiwasax commented 4 years ago

@qunfengdong Oh really? thank you for your paying attention. It's my own 16S database. According to your instruction, Trainning your own database, I have to modify my tag to a rigid format. So, I suggest that multiple symbols can be used in the label setting. You only need to specify clear symbols that represent the segmentation information. In addition, other symbols can be used in the label to facilitate the expansion of database functions. I will send a part of my query sequence and describe files to your Email. Thanks again.

qunfengdong commented 4 years ago

I see. You were using your own 16S database. Unfortunately, you will have to stick to those format (we built BLCA using NCBI taxonomic database format).

hiwasax commented 4 years ago

image

qunfengdong commented 4 years ago

Thanks for all those reports. If you can email me (qunfengd@gmail.com) your query sequence as well as your own 16S database, we'd like to use them to test our procedure.