GLM: segmentation fault

[welton0411]

Hi,
I was trying to analyze high-res fMRI using 'GLM' but received the error message below:

Authored by K.A. Eklund
Data size for run 1: 256 x 256 x 256 x 147
Data size for run 2: 256 x 256 x 256 x 147
Data size for run 3: 256 x 256 x 256 x 147
Data size for run 4: 256 x 256 x 256 x 147
Data size for run 5: 256 x 256 x 256 x 147
Data size for run 6: 256 x 256 x 256 x 147
Data size for run 7: 256 x 256 x 256 x 147
Data size for run 8: 256 x 256 x 256 x 147
Total data size: 256 x 256 x 256 x 1176
Number of original regressors: 7
Number of total regressors: 15
Number of contrasts: 13
Performing 13 t-tests
GLM -runs 8 data_dir/fmri_run1.nii.gz data_dir/fmri_run2.nii.gz data_dir/fmri_run3.nii.gz data_dir/fmri_run4.nii.gz data_dir/fmri_run5.nii.gz data_dir/fmri_run6.nii.gz data_dir/fmri_run7.nii.gz data_dir/fmri_run8.nii.gz -designfiles regress_run1.txt regress_run2.txt regress_run3.txt regress_run4.txt regress_run5.txt regress_run6.txt regress_run7.txt regress_run8.txt -mask data_dir/brainmask_crop.nii -contrasts contrast.txt -firstlevel -detrendingregressors 1 -output brc_: Segmentation fault

The size of each input file is ~850MB. Someone recommended me to put all the input & output files in the directory. I don't know why though. Any help will be highly appreciated.

[wanderine]

Can you show me the output of GetOpenCLInfo ? I'm guessing that you run out of memory due to the large files. 2017-10-07 0:19 GMT+02:00 welton0411 <notifications@github.com>:

…

Hi, I was trying to analyze high-res fMRI using 'GLM' but received the error message below: Authored by K.A. Eklund Data size for run 1: 256 x 256 x 256 x 147 Data size for run 2: 256 x 256 x 256 x 147 Data size for run 3: 256 x 256 x 256 x 147 Data size for run 4: 256 x 256 x 256 x 147 Data size for run 5: 256 x 256 x 256 x 147 Data size for run 6: 256 x 256 x 256 x 147 Data size for run 7: 256 x 256 x 256 x 147 Data size for run 8: 256 x 256 x 256 x 147 Total data size: 256 x 256 x 256 x 1176 Number of original regressors: 7 Number of total regressors: 15 Number of contrasts: 13 Performing 13 t-tests GLM -runs 8 data_dir/fmri_run1.nii.gz data_dir/fmri_run2.nii.gz data_dir/fmri_run3.nii.gz data_dir/fmri_run4.nii.gz data_dir/fmri_run5.nii.gz data_dir/fmri_run6.nii.gz data_dir/fmri_run7.nii.gz data_dir/fmri_run8.nii.gz -designfiles regress_run1.txt regress_run2.txt regress_run3.txt regress_run4.txt regress_run5.txt regress_run6.txt regress_run7.txt regress_run8.txt -mask data_dir/brainmask_crop.nii -contrasts contrast.txt -firstlevel -detrendingregressors 1 -output brc_: Segmentation fault The size of each input file is ~850MB. Someone recommended me to put all the input & output files in the directory. I don't know why though. Any help will be highly appreciated. — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#40>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AEGryNjbqMnUSbVFzzZ9mHaEk0TVyaFnks5spqdcgaJpZM4PxGLr> .

-- Anders Eklund, PhD

[welton0411]

Sure. Please see below:

---

Device info

---

Platform number: 0

Platform vendor: Intel(R) Corporation
Platform name: Intel(R) OpenCL
Platform extentions: cl_khr_icd cl_khr_global_int32_base_atomics cl_khr_global_int32_extended_atomics cl_khr_local_int32_base_atomics cl_khr_local_int32_extended_atomics cl_khr_byte_addressable_store cl_khr_depth_images cl_khr_3d_image_writes cl_intel_exec_by_local_thread cl_khr_spir cl_khr_fp64
Platform profile: FULL_PROFILE

---

Device number: 0

Device vendor: Intel(R) Corporation
Device name: Intel(R) Xeon(R) CPU E5-2643 v3 @ 3.40GHz
Hardware version: OpenCL 1.2 (Build 25)
Software version: 1.2.0.25
OpenCL C version: OpenCL C 1.2
Device extensions: cl_khr_icd cl_khr_global_int32_base_atomics cl_khr_global_int32_extended_atomics cl_khr_local_int32_base_atomics cl_khr_local_int32_extended_atomics cl_khr_byte_addressable_store cl_khr_depth_images cl_khr_3d_image_writes cl_intel_exec_by_local_thread cl_khr_spir cl_khr_fp64
Global memory size in MB: 257546
Size of largest memory object in MB: 64386
Global memory cache size in KB: 256
Local memory size in KB: 32
Constant memory size in KB: 128
Parallel compute units: 24
Clock frequency in MHz: 3400
Max number of threads per block: 8192
Max number of threads in each dimension: 8192 8192 8192

---

Any solution for the memory issue?