[Particle extraction] There are green lines between particles

[ecwww]

We are using relion 4.0.0 for helix reconstruction. After Manual Picking, which selects pick start-end coordinates helices, we try Particle extraction. The output of Particle extraction have green lines between particles. However, when we try relion 3.1.4 with the similar parameters, there isn't green lines.

So how to delete the green lines.

[ecwww]

[biochem-fan]

I guess this is just a display issue and harmless (although admittedly annoying). Are the output particles fine?

[ecwww]

I guess this is just a display issue and harmless (although admittedly annoying). Are the output particles fine?

We try to go on.

But on the output of auto picking, greens lines are over the screen and the start-end green circles have odd numbers, which should be even numbers to process particle extraction. And it is not pick as what we want along the pole. The above is the output of autopicking The above is the output of particle extraction which deleted the single particle manually.

[biochem-fan]

But on the output of auto picking, greens lines are over the screen and the start-end green circles have odd numbers, which should be even numbers to process particle extraction.

Which program did you use for AutoPick? Topaz filament? RELION's old filament picker? Something else?

Do the results contain odd numbers of "particles" always (i.e. in all images)?

The above is the output of particle extraction which deleted the single particle manually.

I don't understand what you mean.

Do you mean AutoPick always picks odd numbers of points and the start and the end pairs are shifted by one? So you deleted the first "particle" to get the pairing right? Is this what you mean?

If you could share one sample image (motion corrected) and show me how to reproduce your issue, that would be very useful for our investigation.

P.S. please use screenshots, not huge photos to show examples.