convert_h5.py question

[ruida]

Hi,

Thanks for sharing the code with the community. I have one quick question. In convert_h5.py, how do you prepare those corresponding data? i.e., what is the FS mean? Could you leave us with the data preparation instruction? Hopefully, the guidance will make us easier to run your architecture.
Thanks much!

--Ruida

"""
Convert to h5 utility.
Sample command to create new dataset - python utils/convert_h5.py -dd /home/masterthesis/shayan/nas_drive/Data_Neuro/OASISchallenge/FS -ld /home/masterthesis/shayan/nas_drive/Data_Neuro/OASISchallenge -trv datasets/train_volumes.txt -tev datasets/test_volumes.txt -rc Neo -o COR -df datasets/MALC/coronal
- python utils/convert_h5.py -dd /home/masterthesis/shayan/nas_drive/Data_Neuro/IXI/IXI_FS -ld /home/masterthesis/shayan/nas_drive/Data_Neuro/IXI/IXI_FS -ds 98,2 -rc FS -o COR -df datasets/IXI/coronal
- python3.6 utils/convert_h5.py -dd /home/deeplearning/Abhijit/nas_drive/Abhijit/WholeBody/CT_ce/Data/SilverCorpus -ld /home/deeplearning/Abhijit/nas_drive/Abhijit/WholeBody/CT_ce/Data/SilverCorpus -trv datasets/test_volumes_silver.txt -tev datasets/test_volumes_silver.txt -rc WholeBody -o AXI -df datasets/silver_corpus
"""

[TDBaker2016]

Hi

Hi,

Thanks for sharing the code with the community. I have one quick question. In convert_h5.py, how do you prepare those corresponding data? i.e., what is the FS mean? Could you leave us with the data preparation instruction? Hopefully, the guidance will make us easier to run your architecture.
Thanks much!

--Ruida

"""
Convert to h5 utility.
Sample command to create new dataset - python utils/convert_h5.py -dd /home/masterthesis/shayan/nas_drive/Data_Neuro/OASISchallenge/FS -ld /home/masterthesis/shayan/nas_drive/Data_Neuro/OASISchallenge -trv datasets/train_volumes.txt -tev datasets/test_volumes.txt -rc Neo -o COR -df datasets/MALC/coronal

• python utils/convert_h5.py -dd /home/masterthesis/shayan/nas_drive/Data_Neuro/IXI/IXI_FS -ld /home/masterthesis/shayan/nas_drive/Data_Neuro/IXI/IXI_FS -ds 98,2 -rc FS -o COR -df datasets/IXI/coronal
• python3.6 utils/convert_h5.py -dd /home/deeplearning/Abhijit/nas_drive/Abhijit/WholeBody/CT_ce/Data/SilverCorpus -ld /home/deeplearning/Abhijit/nas_drive/Abhijit/WholeBody/CT_ce/Data/SilverCorpus -trv datasets/test_volumes_silver.txt -tev datasets/test_volumes_silver.txt -rc WholeBody -o AXI -df datasets/silver_corpus
  """

Hi Ruida, this Viseral data used in this work is not available now. Could you help share some toy data only for debug? Thank you.

[lilyandluc]

Hi

Hi,
Thanks for sharing the code with the community. I have one quick question. In convert_h5.py, how do you prepare those corresponding data? i.e., what is the FS mean? Could you leave us with the data preparation instruction? Hopefully, the guidance will make us easier to run your architecture.
Thanks much!
--Ruida
"""
Convert to h5 utility.
Sample command to create new dataset - python utils/convert_h5.py -dd /home/masterthesis/shayan/nas_drive/Data_Neuro/OASISchallenge/FS -ld /home/masterthesis/shayan/nas_drive/Data_Neuro/OASISchallenge -trv datasets/train_volumes.txt -tev datasets/test_volumes.txt -rc Neo -o COR -df datasets/MALC/coronal

• python utils/convert_h5.py -dd /home/masterthesis/shayan/nas_drive/Data_Neuro/IXI/IXI_FS -ld /home/masterthesis/shayan/nas_drive/Data_Neuro/IXI/IXI_FS -ds 98,2 -rc FS -o COR -df datasets/IXI/coronal
• python3.6 utils/convert_h5.py -dd /home/deeplearning/Abhijit/nas_drive/Abhijit/WholeBody/CT_ce/Data/SilverCorpus -ld /home/deeplearning/Abhijit/nas_drive/Abhijit/WholeBody/CT_ce/Data/SilverCorpus -trv datasets/test_volumes_silver.txt -tev datasets/test_volumes_silver.txt -rc WholeBody -o AXI -df datasets/silver_corpus
  """

Hi Ruida, this Viseral data used in this work is not available now. Could you help share some toy data only for debug? Thank you.
have you got that toy data?I'm trying on this and I can't figure out the content of dataset