RuntimeWarning: invalid value encountered in true_divide result = result / np.linalg.norm(result, axis=1).reshape((-1, 1))

[jolespin]

Here is the file where this occurred: [ attached in zip ]

Here is the command:

tiara -i $FP --probabilities --threads 16 -o tiara_output/${FP}.tiara.tsv

I'm using Tiara v1.0.2

Here's my error (I replace $HOME)

$HOME/anaconda3/envs/tiara_env/lib/python3.7/site-packages/tiara/src/transformations.py:195: RuntimeWarning: invalid value encountered in true_divide   result = result / np.linalg.norm(result, axis=1).reshape((-1, 1))

[santonow]

Hi @jolespin!
Thank you for raising this issue. I think this might happen when there are no instances of a particular k-mer in the input sequence. I'll try to look into this issue this or next week. Sadly I don't see the zip with sequences – could you attach it again?
Thanks, santonow

[Keltonc]

Hi @santonow, I'm also encountering this error in my run. Have you managed to fix this?
$HOME/mambaforge/envs/tiara/lib/python3.8/site-packages/tiara/src/transformations.py:199: RuntimeWarning: invalid value encountered in true_divide result = result / np.linalg.norm(result, axis=1).reshape((-1, 1))

Here's the command I'm using
tiara --input $GENOME --output out.txt --tf mit pla bac arc pro -t 4 --probabilities

The version I'm running is v1.0.3.

Thanks.
Kelton

[jolespin]

Hi @jolespin! Thank you for raising this issue. I think this might happen when there are no instances of a particular k-mer in the input sequence. I'll try to look into this issue this or next week. Sadly I don't see the zip with sequences – could you attach it again? Thanks, santonow

Unfortunately, I have no idea which sequences threw this error since it's been a bit. Sorry this one slipped through the cracks.