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CellMechLab / NanoPrepare

Simple interface to screen and pack nanoindentation curves for further indentation analysis
GNU General Public License v3.0
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issue in uploading the data #2

Closed Smpoorya closed 6 months ago

Smpoorya commented 7 months ago

Hi, I am trying to use the "prepare.py" code, as you suggested in the Jove website, but when I uploaded my file from directory to the "prepare application", the list of files came to the software, but I could not see any curve. also, I saw an error "IndexError: list index out of range" in the command windows. I would be appreciated if you help me with that. 1 2

massimovassalli commented 7 months ago

Hi, the program is not able to find any segments in the curves. This is likely to be due to the version of the text files (the company has been a bit wild in the versioning, and changes are poorly documented).

You should be able to see the curves if you click on the TIME button and possibly choose Euristic method for segments.

If you attach 1-2 of your source files here, we will look into the issue.

On Wed, 1 May 2024, 01:02 Smpoorya, @.***> wrote:

Hi, I am trying to use the "prepare.py" code, as you suggested in the Jove website, but when I uploaded my file from directory to the "prepare application", the list of files came to the software, but I could not see any curve. also, I saw an error "IndexError: list index out of range" in the command windows. 1.png (view on web) https://github.com/CellMechLab/NanoPrepare/assets/168601230/0b541996-8a38-4111-b1d5-dbfdca4509c3 2.png (view on web) https://github.com/CellMechLab/NanoPrepare/assets/168601230/8c2bb6ac-1567-4d40-ae0f-208a77c27603

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Smpoorya commented 7 months ago

Dr Vassalli, Thank you for your quick reply. As you said, I could see the Load-time curve with "TIME- Euristic method". I will attach one of my source files in this email. I am looking forward to work with your method and compare the result with DATAVIEWR software. image A1.zip

Smpoorya commented 7 months ago

One other question that I want to ask you is that with the use of "Indentation mode"(I-Mode), I can achieve Load-Time curve, which give me stress relaxation that I can use. In "Dataview" software there is no built-in option that I can calculate stress relaxation. Does your method and Code have the ability to calculate that? Thank you again for your help.

massimovassalli commented 7 months ago

Hi, I see you are using "Peak Load Poking" mode that was indeed not supported yet. Support for this is now added, and it should give you what you wanted. Please do test it and let us know

On Wed, 1 May 2024 at 15:34, Smpoorya @.***> wrote:

One other question that I want to ask you is that with the use if Indentation mode(I-Mode), I can achieve Load-Time curve, which give me stress relaxation that I can use. In "Dataview" software there is no built-in option that I can calculate stress relaxation. Does your method and Code have the ability to calculate that? Thank you again for your help.

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-- Massimo Vassalli Nanoengineering 4 Mechanobiology n4m.mechanobiology.eu

massimovassalli commented 7 months ago

Regarding stress-relaxation ... we do have a jupyter notebook for this, and we are planning to integrate it in the main GUI soon. Either you wait for a little while more, or we can share the notebook

Smpoorya commented 6 months ago

thank you, Dr Vassalli I think the uploading part now fixed, but I confront error in saving, specifically saveJson. image about the stress relaxation, I would be happy to get the files from you. By the way, I am PhD student in biomedical engineering Program in Rochester institute of technology and we would be so thrilled to collaborate with your team.

massimovassalli commented 6 months ago

Hi, I could not reproduce the error above with the dataset you sent me, nor with any of the datasets I do have. Is this with a different datasets? More than happy to chat, interact and share our scripts. Would you mind dropping down a message to my institutional email @glasgow ?