Error in Saving the Project and in Exporting angles

[Micbut]

Hi, let me first tell you that this software is amazing and so its potential.

I managed to easily upload my point cloud and reconstruct the topology.

As mentioned in the guide, the software often crash and it is advised to save often, however, when I try to save it gives me error. The both the Save Project and the Open Project option are not selectable.

I am using windows 10 and I launch plantscan3d from an environment dedicated to openalea in anaconda3.

Similarly, I cannot save the angles at the end of the reconstruction. When it try to create the file it crash

[fredboudon]

Thanks for this report. I will try to fix it for the next version of plantscan3d

[Micbut]

Thank you, the following is the error log when I try to save plantscan3d.log

[Micbut]

And the following is the error log when I try to export the angles: plantscan3d.log

[Micbut]

Could it be that I face these issues with saving because I have the version 1.2.2 of PlantScan3d?

I tryied to update to 1.2.3 and 1.3.0 (that seem to be available) but I get the following error:

[Micbut]

This is what I find in the .log file

1.3.0

2023-01-23, 18:42:35

<class 'PermissionError'>: [Errno 13] Permission denied: '/'

File "c:\users\buttu001.conda\envs\openale\lib\site-packages\openalea.plantscan3d-1.3.0-py3.9.egg\openalea\plantscan3d\main_viewer.py", line 2896, in angleEstimate write_phylo_angles(str(fname[0]), phyangles, nodelength) File "c:\users\buttu001.conda\envs\openale\lib\site-packages\openalea.plantscan3d-1.3.0-py3.9.egg\openalea\plantscan3d\angleanalysis.py", line 113, in write_phylo_angles f = open(output_phy,'w')

[fredboudon]

Can you try to save your data into a file whose name has no space. For instance into C:/tmp. Just to check if the pb occurs because of bad filename management.

[Micbut]

I tried, and it doesn't give me error, however the file is not created

[Micbut]

Please let me know if you need other information

[Micbut]

2 of my colleagues manage to solve the issue of exporting.

The find and error within main_viewer.py before:

after:

However now I stuggle interpreting the content of the file

this is what I see:

how do I relate thi angle to the following structure?

[fredboudon]

In theory, there should be a main line representing the trunk and secondary lines representing the second order branches. They should have been displayed. The phyllotactic angles are then evaluated. They are given in absolute (relative to OX if I remember well) or in relative (difference of angle between 2 consecutives branches) either in clock wise order or in counter clock wise order. The internode length is also estimated (and not the node length). Hope it helps for the interpretation. I will check the visual representation of it.

[Micbut]

Thank you: does it also provide inclination angles? With respect to the central vertical axis. That would be a very very valuable info

[Micbut]

In theory, there should be a main line representing the trunk and secondary lines representing the second order branches. They should have been displayed. The phyllotactic angles are then evaluated. They are given in absolute (relative to OX if I remember well) or in relative (difference of angle between 2 consecutives branches) either in clock wise order or in counter clock wise order. The internode length is also estimated (and not the node length). Hope it helps for the interpretation. I will check the visual representation of it.

Unfortunately the output file generated misses some lines - I think there are few mistakes in the code that should be fixed. One feature that would be extremely useful is to export the angles in an MTG format. Because now the MTG file is not that useful because it describes the topology of the nodes and not of the Internodes.

If we could export an MTG that describes the topology of the internodes AND for each internode (in the attributes columns) the angles and the length would be fantastic