search

alekseyzimin / JASPER_release

This is integrated version of JASPER polisher
GNU General Public License v3.0
1 stars 1 forks source link

Bad magic number in 'dna_jellyfish' #1

Open bioellie opened 10 months ago

bioellie commented 10 months ago

Hello,

I have installed Jasper integrated version 1.0.4 by following the installation instructions. I am using conda env with Python 3.10.9 and receiving an error concerning dna_jellyfish. Here is the .err file output :

/home/s415504/anaconda3/envs/jasper/lib/python3.10/site-packages/Bio/pairwise2.py:278: BiopythonDeprecationWarning: Bio.pairwise2 has been deprecated, and we intend to remove it in a future release of Biopython. As an alternative, please consider using Bio.Align.PairwiseAligner as a replacement, and contact the Biopython developers if you still need the Bio.pairwise2 module. warnings.warn( Traceback (most recent call last): File "/home/s415504/50_T-2_Leave_R3B/hybrid_assembly/JASPER-1.0.4/bin/jasper.py", line 10, in import dna_jellyfish as jf ImportError: bad magic number in 'dna_jellyfish': b'\x03\xf3\r\n'

I look forward to hearing back from you. Thank you!

alguoo314 commented 10 months ago

The bad magic number is usually due to the failure of binding to Python3. Could you try entering the Jellyfish directory and explicitly run ./configure --prefix=$HOME/.local --enable-python-binding=$HOME/.local/lib/python3.10.9/site-packages --enable-swig (the path for your python packages) ?