install snapatac2 error -- Failed to build snapatac2 MACS3

[hwa2Hu]

Hi Kai,
Got this error when install snapatac2 (Ubutun 22.04.5 LTSw ith macs3 already installed)

1st error:

Building wheels for collected packages: MACS3
Building wheel for MACS3 (pyproject.toml) ... error
error: subprocess-exited-with-error

× Building wheel for MACS3 (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [1687 lines of output]
:77: SyntaxWarning: invalid escape sequence '\s'
/tmp/pip-build-env-r8f_zyc3/overlay/lib/python3.13/site-packages/setuptools/_distutils/dist.py:270: UserWarning: Unknown distribution option: 'tests_require'
warnings.warn(msg)
running bdist_wheel

2nd error

  MACS3/Signal/HMMR_EM.c: In function ‘__Pyx_PyInt_As_long’:
  MACS3/Signal/HMMR_EM.c:11659:27: error: too few arguments to function ‘_PyLong_AsByteArray’
  11659 |                 int ret = _PyLong_AsByteArray((PyLongObject *)v,
        |                           ^~~~~~~~~~~~~~~~~~~
  In file included from /home/owner/.pyenv/versions/3.13.1/include/python3.13/longobject.h:107,
                   from /home/owner/.pyenv/versions/3.13.1/include/python3.13/Python.h:81,
                   from MACS3/Signal/HMMR_EM.c:36:
  /home/owner/.pyenv/versions/3.13.1/include/python3.13/cpython/longobject.h:111:17: note: declared here
    111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v,
        |                 ^~~~~~~~~~~~~~~~~~~
  error: command '/usr/bin/gcc' failed with exit code 1
  [end of output]

note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for MACS3
Failed to build MACS3
ERROR: Failed to build installable wheels for some pyproject.toml based projects (MACS3)

[yasnaghamsari]

Hey,
Did you find a soloution ?

[TingTingShao]

I used nightly build version with commands:

mamba create --name snap2 python=3.10
mamba activate snap2
sudo apt-get update
sudo apt-get install zlib1g-dev
pip install snapatac2-2.9.0.dev0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 

Hope it helps.
TingTing

[hwa2Hu]

Attached the whole install process

snapatac2 install error.txt

I used nightly build version with commands:

mamba create --name snap2 python=3.10
mamba activate snap2
sudo apt-get update
sudo apt-get install zlib1g-dev
pip install snapatac2-2.9.0.dev0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 

Hope it helps. TingTing

Do you mean it need python=3.10. ? I used python 3.13.1.

[hwa2Hu]

Hey, Did you find a soloution ?

Sorry, not yet.

[hwa2Hu]

I used nightly build version with commands:

mamba create --name snap2 python=3.10
mamba activate snap2
sudo apt-get update
sudo apt-get install zlib1g-dev
pip install snapatac2-2.9.0.dev0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 

Hope it helps. TingTing

Thank you TingTing, Nightly release worked.
They have different release for different python version.
cp313-cp313 is for python 3.13.x

[hwa2Hu]

Hey, Did you find a soloution ?

See the post from TingTing. Nightly release worked.

On PC, just

pip install snapatac2-2.9.0.dev0-cpxxx-cpxx.manylinux_2_17_x86_64.manylinux2014_x86_64.whl

(download the version with cpxxx match your python version)