Igor IBW translator - loss of metadata

Question

Igor IBW translator - loss of metadata

JulianeWeb opened this issue 5 years ago · comments

Hi!
I am using the Igor IBW translator (IgorIBWTranslator) to convert large amount of AFM data.
The ibw file has stored a lot of metadata, which normally can be accessed using e.g. gwyddion or the Igor Software. When converting the files into hdf5 using the IgorIBWTranslator, this metadata is lost. There is other metadata added instead. How can I change the code that the metadata (ScanRate, ScanPoints, ScanLines, ScanSize) is added into the hdf5 file?
I would appreciate help with this a lot, thanks!

ramav87 · Answer 1 · Fri Jun 14 2019 02:02:08 GMT+0800 (China Standard Time)

Hi JulianeWeb, it looks like within the Igor IBW Translator class the function you want to modify is _read_parms() . It appears to cycle through the parameters in parm_list which is itself from ibw_wave.get('note') . Take a look at the output for that, and for ibw_wave.get('wave_header') . Do these have the required metadata?

JulianeWeb · Answer 2 · Sat Jun 15 2019 02:33:12 GMT+0800 (China Standard Time)

Hi ramav87, thanks for your answer. I am trying to see the output for the parm_list but it does not really work for me at the moment. I am working with Liam Collins on an AFM project, if there is any contact possibility, besides github, I could contact you and describe the issue more in detail. I can also send you some example data.
Thank you!

ramav87 · Answer 3 · Sat Jun 15 2019 21:23:15 GMT+0800 (China Standard Time)

Certainly, you can stop by my office next week when you are at CNMS (e.g., on Wednesday). Rama

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On Fri, Jun 14, 2019 at 2:33 PM JulianeWeb ***@***.***> wrote: Hi ramav87, thanks for your answer. I am trying to see the output for the parm_list but it does not really work for me at the moment. I am working with Liam Collins on an AFM project, if there is any contact possibility, besides github, I could contact you and describe the issue more in detail. I can also send you some example data. Thank you! — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#207?email_source=notifications&email_token=ADNDQFKVYZQNTTX66TKFTMLP2PP6TA5CNFSM4HX3TI2KYY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGODXXTYUQ#issuecomment-502217810>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ADNDQFKM5L4IPNYARIKIS3TP2PP6TANCNFSM4HX3TI2A> .

ramav87 · Answer 4 · Mon Jun 24 2019 20:55:44 GMT+0800 (China Standard Time)

Closing issue - the attributes including scan rate, scan points, etc. are in the measurement group.