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wh-xu / Hyper-Gen

HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors
MIT License
9 stars 2 forks source link

help for installation #4

Closed usergenomics13 closed 2 months ago

usergenomics13 commented 2 months ago

Hello I'm trying to install hypergen and faced with this

$ git clone https://github.com/wh-xu/Hyper-Gen.git
Cloning into 'Hyper-Gen'
...
Resolving deltas: 100% (86/86), done.
$ cd Hyper-Gen
$ cargo install --path .
  Installing hyper-gen v0.2.2 (/v/other/hyperg/Hyper-Gen)
    Updating crates.io index
     Locking 137 packages to latest compatible versions
      Adding bindgen v0.66.1 (latest: v0.69.4)
      Adding bit-vec v0.4.4 (latest: v0.6.3)
      Adding cudarc v0.10.0 (latest: v0.11.6)
      Adding encode_unicode v0.3.6 (latest: v1.0.0)
      Adding linux-raw-sys v0.4.14 (latest: v0.6.4)
      Adding peeking_take_while v0.1.2 (latest: v1.0.0)
      Adding rustc-hash v1.1.0 (latest: v2.0.0)
      Adding wasi v0.11.0+wasi-snapshot-preview1 (latest: v0.13.1+wasi-0.2.0)
      Adding which v4.4.2 (latest: v6.0.1)
      Adding windows-core v0.52.0 (latest: v0.57.0)
  Downloaded is_terminal_polyfill v1.70.0
  Downloaded cexpr v0.6.0
  Downloaded xxhash-rust v0.8.10
...
   Compiling bloom v0.3.2
error: failed to run custom build command for `cudarc v0.10.0`

Caused by:
  process didn't exit successfully: `/v/other/hyperg/Hyper-Gen/target/release/build/cudarc-344848acdfa34408/build-script-build` (exit status: 101)
  --- stdout
  cargo:rerun-if-changed=build.rs
  cargo:rerun-if-env-changed=CUDA_ROOT
  cargo:rerun-if-env-changed=CUDA_PATH
  cargo:rerun-if-env-changed=CUDA_TOOLKIT_ROOT_DIR

  --- stderr
  thread 'main' panicked at /home/s/.cargo/registry/src/index.crates.io-6f17d22bba15001f/cudarc-0.10.0/build.rs:21:13:
  Unable to find `include/cuda.h` under any of: ["/usr", "/usr/local/cuda", "/opt/cuda", "/usr/lib/cuda", "C:/Program Files/NVIDIA GPU Computing Toolkit", "C:/CUDA"]. Set the `CUDA_ROOT` environment variable to `$CUDA_ROOT/include/cuda.h` to override path.
  note: run with `RUST_BACKTRACE=1` environment variable to display a backtrace
warning: build failed, waiting for other jobs to finish...
error: failed to compile `hyper-gen v0.2.2 (/v/other/hyperg/Hyper-Gen)`, intermediate artifacts can be found at `/v/other/hyperg/Hyper-Gen/target`.
To reuse those artifacts with a future compilation, set the environment variable `CARGO_TARGET_DIR` to that path.

It seems it is trying to config/use GPU. I want to use the software with cpu only.

about my institutional system

$ lscpu
Architecture:        x86_64
CPU op-mode(s):      32-bit, 64-bit
Model name:          Intel(R) Xeon(R)
..

$ rustup
rustup 1.27.1 (54dd3d00f 2024-04-24)
$  cargo -V
cargo 1.79.0 (ffa9cf99a 2024-06-03)

I'm looking forward to your answer.

wh-xu commented 2 months ago

We added the conditional compilation support for CPU mode. Please check the updated installation instructions. Thanks.

usergenomics13 commented 2 months ago

Great! I just installed the cpu mode and it worked well. thanks.