RandomiseGroupLevel crashing about broccoli

[wanderine]

Hi, can you show me the output of GetOpenCLInfo - Anders Den fre 25 maj 2018 02:49kenny <[email protected]> skrev:

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Hi, I am trying to run RandomiseGroupLevel for the first time using CPU and am getting the following error. Do you know how to resolve this? Thank you! Authored by K.A. Eklund Data size: 197 x 233 x 189 x 976 Number of permutations: 5000 Number of regressors: 4 Number of contrasts: 2 Performing 2 t-tests Two sample t-test design detected for t-contrast 1, 590 subjects in group 1 and 386 subjects in group 2 Two sample t-test design detected for t-contrast 2, 590 subjects in group 1 and 386 subjects in group 2 Max number of permutations for contrast 1 is 7.84211e+282 Max number of permutations for contrast 2 is 7.84211e+282 Unable to write to binary file for kernel kernelConvolution.cpp, null file pointer! Both operands to ICmp instruction are not of the same type! %41 = icmp slt i32 %39, i64 0 Both operands to ICmp instruction are not of the same type! %61 = icmp sgt i64 %53, i32 %40 Invalid operands for select instruction! %62 = select i1 %61, i64 %53, i32 %40 Broken module found, compilation aborted! Stack dump: 0. Running pass 'Function Pass Manager' on module 'main'. 1. Running pass 'Module Verifier' on function ***@***.***' Aborted (core dumped) — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#51>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AEGryOulnr7m2YIp2cZuqv8BOWlHw9J6ks5t11UbgaJpZM4UNNQe> .

[changken1]

Here is the output. I am trying to use platform 1 (CPU) because I run out of memory when I use the GPU (same problem as #42). Thanks!

Device info

---

Platform number: 0

Platform vendor: NVIDIA Corporation
Platform name: NVIDIA CUDA
Platform extentions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer
Platform profile: FULL_PROFILE

---

Device number: 0

Device vendor: NVIDIA Corporation
Device name: Tesla K80
Hardware version: OpenCL 1.2 CUDA
Software version: 384.111
OpenCL C version: OpenCL C 1.2
Device extensions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer
Global memory size in MB: 11439
Size of largest memory object in MB: 2859
Global memory cache size in KB: 208
Local memory size in KB: 48
Constant memory size in KB: 64
Parallel compute units: 13
Clock frequency in MHz: 823
Max number of threads per block: 1024
Max number of threads in each dimension: 1024 1024 64

---

Device number: 1

Device vendor: NVIDIA Corporation
Device name: Tesla K80
Hardware version: OpenCL 1.2 CUDA
Software version: 384.111
OpenCL C version: OpenCL C 1.2
Device extensions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer
Global memory size in MB: 11439
Size of largest memory object in MB: 2859
Global memory cache size in KB: 208
Local memory size in KB: 48
Constant memory size in KB: 64
Parallel compute units: 13
Clock frequency in MHz: 823
Max number of threads per block: 1024
Max number of threads in each dimension: 1024 1024 64

---

Device number: 2

Device vendor: NVIDIA Corporation
Device name: Tesla K80
Hardware version: OpenCL 1.2 CUDA
Software version: 384.111
OpenCL C version: OpenCL C 1.2
Device extensions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer
Global memory size in MB: 11439
Size of largest memory object in MB: 2859
Global memory cache size in KB: 208
Local memory size in KB: 48
Constant memory size in KB: 64
Parallel compute units: 13
Clock frequency in MHz: 823
Max number of threads per block: 1024
Max number of threads in each dimension: 1024 1024 64

---

Device number: 3

Device vendor: NVIDIA Corporation
Device name: Tesla K80
Hardware version: OpenCL 1.2 CUDA
Software version: 384.111
OpenCL C version: OpenCL C 1.2
Device extensions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer
Global memory size in MB: 11439
Size of largest memory object in MB: 2859
Global memory cache size in KB: 208
Local memory size in KB: 48
Constant memory size in KB: 64
Parallel compute units: 13
Clock frequency in MHz: 823
Max number of threads per block: 1024
Max number of threads in each dimension: 1024 1024 64

---

Platform number: 1

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 E5-2695 v3 @ 2.30GHz
Hardware version: OpenCL 1.2 (Build 43)
Software version: 1.2.0.43
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: 257848
Size of largest memory object in MB: 64462
Global memory cache size in KB: 256
Local memory size in KB: 32
Constant memory size in KB: 128
Parallel compute units: 56
Clock frequency in MHz: 2300
Max number of threads per block: 8192
Max number of threads in each dimension: 8192 8192 8192

[wanderine]

It seems like the compiler for Intel OpenCL crashes, which Intel OpenCL driver did you install? Which Linux distribution are you using? 2018-05-25 15:04 GMT+02:00 kenny <[email protected]>:

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Here is the output. I am trying to use platform 1 (CPU) because I run out of memory when I use the GPU (same problem as #42 <#42>). Thanks! Device info ------------------------------ Platform number: 0 Platform vendor: NVIDIA Corporation Platform name: NVIDIA CUDA Platform extentions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer Platform profile: FULL_PROFILE ------------------------------ Device number: 0 Device vendor: NVIDIA Corporation Device name: Tesla K80 Hardware version: OpenCL 1.2 CUDA Software version: 384.111 OpenCL C version: OpenCL C 1.2 Device extensions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer Global memory size in MB: 11439 Size of largest memory object in MB: 2859 Global memory cache size in KB: 208 Local memory size in KB: 48 Constant memory size in KB: 64 Parallel compute units: 13 Clock frequency in MHz: 823 Max number of threads per block: 1024 Max number of threads in each dimension: 1024 1024 64 ------------------------------ Device number: 1 Device vendor: NVIDIA Corporation Device name: Tesla K80 Hardware version: OpenCL 1.2 CUDA Software version: 384.111 OpenCL C version: OpenCL C 1.2 Device extensions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer Global memory size in MB: 11439 Size of largest memory object in MB: 2859 Global memory cache size in KB: 208 Local memory size in KB: 48 Constant memory size in KB: 64 Parallel compute units: 13 Clock frequency in MHz: 823 Max number of threads per block: 1024 Max number of threads in each dimension: 1024 1024 64 ------------------------------ Device number: 2 Device vendor: NVIDIA Corporation Device name: Tesla K80 Hardware version: OpenCL 1.2 CUDA Software version: 384.111 OpenCL C version: OpenCL C 1.2 Device extensions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer Global memory size in MB: 11439 Size of largest memory object in MB: 2859 Global memory cache size in KB: 208 Local memory size in KB: 48 Constant memory size in KB: 64 Parallel compute units: 13 Clock frequency in MHz: 823 Max number of threads per block: 1024 Max number of threads in each dimension: 1024 1024 64 ------------------------------ Device number: 3 Device vendor: NVIDIA Corporation Device name: Tesla K80 Hardware version: OpenCL 1.2 CUDA Software version: 384.111 OpenCL C version: OpenCL C 1.2 Device extensions: 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_fp64 cl_khr_byte_addressable_store cl_khr_icd cl_khr_gl_sharing cl_nv_compiler_options cl_nv_device_attribute_query cl_nv_pragma_unroll cl_nv_copy_opts cl_nv_create_buffer Global memory size in MB: 11439 Size of largest memory object in MB: 2859 Global memory cache size in KB: 208 Local memory size in KB: 48 Constant memory size in KB: 64 Parallel compute units: 13 Clock frequency in MHz: 823 Max number of threads per block: 1024 Max number of threads in each dimension: 1024 1024 64 ------------------------------ Platform number: 1 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 E5-2695 v3 @ 2.30GHz Hardware version: OpenCL 1.2 (Build 43) Software version: 1.2.0.43 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: 257848 Size of largest memory object in MB: 64462 Global memory cache size in KB: 256 Local memory size in KB: 32 Constant memory size in KB: 128 Parallel compute units: 56 Clock frequency in MHz: 2300 Max number of threads per block: 8192 Max number of threads in each dimension: 8192 8192 8192 — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#51 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AEGryLKx777iX6TP8-y-MTctm3b9UA-pks5t2AFbgaJpZM4UNNQe> .

-- Anders Eklund, PhD

[changken1]

I installed OpenCL on Ubuntu 14.04 using these instructions: http://yuleiming.com/install-intel-opencl-on-ubuntu-14-04/

I might try to install Ubuntu 16.04 in a docker and install OpenCL from there.

I have a different question - for the "volumes_perm_pvalues.nii" of the Randomise function, are the p-values in the nifti file the p-values or are they 1 - p-value? I only ask because the background values are all 0. Want to double check.

Thank you!

Best,
Ken

[wanderine]

Yes the p-values are 1 - p, to mimic how randomise works in FSL. 2018-05-29 23:38 GMT+02:00 kenny <[email protected]>:

…

I installed OpenCL on Ubuntu 14.04 using these instructions: http://yuleiming.com/install-intel-opencl-on-ubuntu-14-04/ I might try to install ubuntu 16.04 in a docker and install OpenCL from there. I have a different question - for the "volumes_perm_pvalues.nii" of the Randomise function, are the p-values in the nifti file the p-values or are they 1 - p-value? I only ask because the background values are all 0. Want to double check. Thank you! Best, Ken — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#51 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AEGryGLexfI2VjieLD_9UmrSBHH-Du5iks5t3b_ggaJpZM4UNNQe> .

-- Anders Eklund, PhD