Whilst attempting to upgrade my CUDA install on Ubuntu 18.04 LTS I have encountered a problem - it seems I have an issue with conflicting packages, which is preventing another package being installed, although I am not sure exactly which packages these are, or whether it’s safe to remove one of them. I began the process by removing the previous CUDA install, following the instructions provided here:
sudo rm /etc/apt/sources.list.d/cuda*
sudo apt remove --autoremove nvidia-cuda-toolkit
sudo apt remove --autoremove nvidia-*
sudo apt-get purge nvidia*
sudo apt-get autoremove
sudo apt-get autoclean
sudo rm -rf /usr/local/cuda*
Then I attempted to install the latest CUDA, using the TensorFlow instructions here (which I had followed for the previous CUDA install):
sudo apt install ./nvidia-machine-learning-repo-ubuntu1804_1.0.0-1_amd64.deb
But after executing that I got the following error:
Reading package lists... Done
Building dependency tree
Reading state information... Done
You might want to run 'apt --fix-broken install' to correct these.
The following packages have unmet dependencies.
libnvidia-extra-450 : Depends: libnvidia-extra-460 but it is not installed
E: Unmet dependencies. Try 'apt --fix-broken install' with no packages (or specify a solution).
Then trying sudo apt --fix-broken install gave me:
Reading package lists... Done
Building dependency tree
Reading state information... Done
Correcting dependencies... Done
The following packages were automatically installed and are no longer required:
g++-6 libaccinj64-9.1 libcublas9.1 libcudart9.1 libcufft9.1 libcufftw9.1 libcuinj64-9.1 libcurand9.1 libcusolver9.1
libcusparse9.1 libnppc9.1 libnppial9.1 libnppicc9.1 libnppicom9.1 libnppidei9.1 libnppif9.1 libnppig9.1 libnppim9.1
libnppist9.1 libnppisu9.1 libnppitc9.1 libnpps9.1 libnvblas9.1 libnvgraph9.1 libnvidia-common-440 libnvidia-extra-440
libnvrtc9.1 libnvtoolsext1 libnvvm3 libstdc++-6-dev libthrust-dev libvdpau-dev nvidia-cuda-doc nvidia-cuda-gdb
nvidia-opencl-dev nvidia-profiler nvidia-visual-profiler ocl-icd-opencl-dev opencl-c-headers
Use 'sudo apt autoremove' to remove them.
The following additional packages will be installed:
libnvidia-extra-460
The following NEW packages will be installed
libnvidia-extra-460
0 to upgrade, 1 to newly install, 0 to remove and 273 not to upgrade.
2 not fully installed or removed.
Need to get 0 B/40.9 kB of archives.
After this operation, 120 kB of additional disk space will be used.
Do you want to continue? [Y/n] Y
(Reading database ... 196344 files and directories currently installed.)
Preparing to unpack .../libnvidia-extra-460_460.106.00-0ubuntu1_amd64.deb ...
Unpacking libnvidia-extra-460:amd64 (460.106.00-0ubuntu1) ...
dpkg: error processing archive /var/cache/apt/archives/libnvidia-extra-460_460.106.00-0ubuntu1_amd64.deb (--unpack):
trying to overwrite '/usr/lib/x86_64-linux-gnu/libnvidia-allocator.so', which is also in package libnvidia-compute-450:amd64 450.36.06-0ubuntu1
Errors were encountered while processing:
/var/cache/apt/archives/libnvidia-extra-460_460.106.00-0ubuntu1_amd64.deb
E: Sub-process /usr/bin/dpkg returned an error code (1)
I encountered a problem similar to this a few weeks ago, which was solved by removing the package containing the file that was being overwritten. In this case I suspect there is a driver conflict, since the packages in question contain driver numbers (libnvidia-compute-450, libnvidia-extra-460). But I’m not sure. What exactly is libnvidia-extra-X, anyway? Following the suggested fix from this issue I am minded to run:
sudo dpkg -P nvidia-driver-450
Or force the install with:
sudo dpkg -i --force-overwrite /var/cache/apt/archives/libnvidia-compute-450:amd64 450.36.06-0ubuntu1
sudo apt -f install
The output of dpkg -l | grep -i nvidia is:
ii cuda-nsight-compute-10-1 10.1.243-1 amd64 NVIDIA Nsight Compute
ii cuda-nsight-systems-10-1 10.1.243-1 amd64 NVIDIA Nsight Systems
ii cuda-nvtx-10-1 10.1.243-1 amd64 NVIDIA Tools Extension
ii libaccinj64-9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA ACCINJ Library (64-bit)
ii libcublas9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA cuBLAS Library
ii libcudart9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA CUDA Runtime Library
ii libcufft9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA cuFFT Library
ii libcufftw9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA cuFFTW Library
ii libcuinj64-9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA CUINJ Library (64-bit)
ii libcurand9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA cuRAND Library
ii libcusolver9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA cuSOLVER Library
ii libcusparse9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA cuSPARSE Library
ii libnppc9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives core runtime library
ii libnppial9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Arithmetic and Logic
ii libnppicc9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Color Conversion
ii libnppicom9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Compression
ii libnppidei9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Data Exchange and Initialization
ii libnppif9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Filters
ii libnppig9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Geometry transforms
ii libnppim9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Morphological operations
ii libnppist9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Statistics
ii libnppisu9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Support
ii libnppitc9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives lib for Image Threshold and Compare
ii libnpps9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Performance Primitives for signal processing runtime library
ii libnvgraph9.1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Graph Analytics library (nvGRAPH)
ii libnvidia-cfg1-450:amd64 450.36.06-0ubuntu1 amd64 NVIDIA binary OpenGL/GLX configuration library
ii libnvidia-common-440 450.119.03-0ubuntu0.18.04.1 all Transitional package for libnvidia-common-450
ii libnvidia-common-450 460.91.03-0ubuntu0.18.04.1 all Transitional package for libnvidia-common-460
ii libnvidia-common-460 460.91.03-0ubuntu0.18.04.1 all Shared files used by the NVIDIA libraries
rc libnvidia-compute-440:amd64 440.82-0ubuntu0~0.18.04.2 amd64 NVIDIA libcompute package
ii libnvidia-compute-450:amd64 450.36.06-0ubuntu1 amd64 NVIDIA libcompute package
ii libnvidia-decode-450:amd64 450.36.06-0ubuntu1 amd64 NVIDIA Video Decoding runtime libraries
ii libnvidia-encode-450:amd64 450.36.06-0ubuntu1 amd64 NVENC Video Encoding runtime library
iU libnvidia-extra-440:amd64 450.119.03-0ubuntu0.18.04.1 amd64 Transitional package for libnvidia-extra-450
iU libnvidia-extra-450:amd64 460.91.03-0ubuntu0.18.04.1 amd64 Transitional package for libnvidia-extra-460
ii libnvidia-fbc1-450:amd64 450.36.06-0ubuntu1 amd64 NVIDIA OpenGL-based Framebuffer Capture runtime library
ii libnvidia-gl-450:amd64 450.36.06-0ubuntu1 amd64 NVIDIA OpenGL/GLX/EGL/GLES GLVND libraries and Vulkan ICD
ii libnvidia-ifr1-450:amd64 450.36.06-0ubuntu1 amd64 NVIDIA OpenGL-based Inband Frame Readback runtime library
ii libnvrtc9.1:amd64 9.1.85-3ubuntu1 amd64 CUDA Runtime Compilation (NVIDIA NVRTC Library)
ii libnvtoolsext1:amd64 9.1.85-3ubuntu1 amd64 NVIDIA Tools Extension Library
ii libnvvm3:amd64 9.1.85-3ubuntu1 amd64 NVIDIA NVVM Library
ii nsight-compute-2020.1.0 2020.1.0.33-1 amd64 NVIDIA Nsight Compute
rc nvidia-compute-utils-440 440.82-0ubuntu0~0.18.04.2 amd64 NVIDIA compute utilities
ii nvidia-compute-utils-450 450.36.06-0ubuntu1 amd64 NVIDIA compute utilities
ii nvidia-cuda-doc 9.1.85-3ubuntu1 all NVIDIA CUDA and OpenCL documentation
ii nvidia-cuda-gdb 9.1.85-3ubuntu1 amd64 NVIDIA CUDA Debugger (GDB)
rc nvidia-dkms-440 440.82-0ubuntu0~0.18.04.2 amd64 NVIDIA DKMS package
ii nvidia-dkms-450 450.36.06-0ubuntu1 amd64 NVIDIA DKMS package
ii nvidia-driver-450 450.36.06-0ubuntu1 amd64 NVIDIA driver metapackage
rc nvidia-kernel-common-440 440.82-0ubuntu0~0.18.04.2 amd64 Shared files used with the kernel module
ii nvidia-kernel-common-450:amd64 460.91.03-0ubuntu0.18.04.1 amd64 Transitional package for nvidia-kernel-common-460
ii nvidia-kernel-common-460 460.91.03-0ubuntu0.18.04.1 amd64 Shared files used with the kernel module
ii nvidia-kernel-source-450 450.36.06-0ubuntu1 amd64 NVIDIA kernel source package
ii nvidia-machine-learning-repo-ubuntu1804 1.0.0-1 amd64 nvidia-machine-learning repository configuration files
ii nvidia-modprobe 450.36.06-0ubuntu1 amd64 Load the NVIDIA kernel driver and create device files
ii nvidia-opencl-dev:amd64 9.1.85-3ubuntu1 amd64 NVIDIA OpenCL development files
ii nvidia-profiler 9.1.85-3ubuntu1 amd64 NVIDIA Profiler for CUDA and OpenCL
ii nvidia-settings 470.57.01-0ubuntu0.18.04.1 amd64 Tool for configuring the NVIDIA graphics driver
ii nvidia-utils-450 450.36.06-0ubuntu1 amd64 NVIDIA driver support binaries
ii nvidia-visual-profiler 9.1.85-3ubuntu1 amd64 NVIDIA Visual Profiler for CUDA and OpenCL
ii xserver-xorg-video-nvidia-450 450.36.06-0ubuntu1 amd64 NVIDIA binary Xorg driver
I tried explicitly removing and purging the libnvidia-compute-450 package, but that did nothing. Not sure what to do, tempted to just remove that driver but having read of people being stung by similar problems I’m wary, don’t want to have to completely reinstall Ubuntu!