Dear Guangyu
I have tried your script. But it showed some errors. I think it may be some filename issues.
Error: failed to open file /AD_002_S_5018_201211_05_rm10_tshift_despike_volreg_masked_Qwarped_smooth6_detrend_rmnoise_bandpass.nii_Vols_1.nii.gz
Image Exception : #22 :: ERROR: Could not open image /AD_002_S_5018_201211_05_rm10_tshift_despike_volreg_masked_Qwarped_smooth6_detrend_rmnoise_bandpass.nii_Vols_1
Error: failed to open file /AD_002_S_5018_201211_05_rm10_tshift_despike_volreg_masked_Qwarped_smooth6_detrend_rmnoise_bandpass.nii_Vols_2.nii.gz
Image Exception : #22 :: ERROR: Could not open image /AD_002_S_5018_201211_05_rm10_tshift_despike_volreg_masked_Qwarped_smooth6_detrend_rmnoise_bandpass.nii_Vols_2
Error: failed to open file /AD_002_S_5018_201211_05_rm10_tshift_despike_volreg_masked_Qwarped_smooth6_detrend_rmnoise_bandpass.nii_Vols_1.nii
Image Exception : #22 :: ERROR: Could not open image /AD_002_S_5018_201211_05_rm10_tshift_despike_volreg_masked_Qwarped_smooth6_detrend_rmnoise_bandpass.nii_Vols_1
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
Aborted (core dumped)
Error: failed to open file /AD_002_S_5018_201211_05_rm10_tshift_despike_volreg_masked_Qwarped_smooth6_detrend_rmnoise_bandpass.nii_Vols_2.nii
Image Exception : #22 :: ERROR: Could not open image /AD_002_S_5018_201211_05_rm10_tshift_despike_volreg_masked_Qwarped_smooth6_detrend_rmnoise_bandpass.nii_Vols_2
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
Aborted (core dumped)
Best
Zhen
> 在 2018年11月15日，16:39，Guangyu Zhou <[log in to unmask]> 写道：
>
> Dear Zhen,
>
> Your task could be done easily with fslroi, see below
> fslroi input-image.nii Vols_1-90.nii 0 90
> fslroi input-image.nii Vols_46-135.nii 45 90
>
> If you have a bunch of such 4d nii files in one folder, some shell script might be helpful.
>
> cd to-your-folder
> save_path=directory-to-save-results
> for vol in $( ls *.nii)
> do
> volname=$( basename ${vol})
> fslroi ${vol} ${save_path}/${volname}_Vols_1-90 0 90
> fslroi ${vol} ${save_path}/${volname}_Vols_46-135 45 90
>
> # comment the lines below if .nii.gz files work for you
> fslchfiletype NIFTI ${save_path}/${volname}_Vols_1-90 ${save_path}/${volname}_Vols_1-90
> fslchfiletype NIFTI ${save_path}/${volname}_Vols_46-135 ${save_path}/${volname}_Vols_46-135
> done
>
>
> Hope this helps.
>
> Best,
>
> Guangyu
>
>
> On Thu, Nov 15, 2018 at 3:16 PM Zhen Zhou <[log in to unmask] <mailto:[log in to unmask]>> wrote:
> Dear FSL experts
>
> I have thousands of nii files. Let’s see they all have 145 volumes. And I want to split the 4D file into 2 4D files for each nii file. The first 4D nii file has the first 90 volumes and the second file has the 46-135 volume. They have a overlap of 45 volumes. So how could I do this ?
>
> Best
> Zhen
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