pinellolab / haystack_bio

Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline

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haystack_download_genome error

GleeenSIBS opened this issue · comments

When I use haystack_download_genome command to download the reference genome, it displayed the fowlling error:
Traceback (most recent call last):
File "/picb/epigenome/usr/zhangge/Softwares/haystack_bio_master/haystack/download_genome.py", line 24, in
main()
File "/picb/epigenome/usr/zhangge/Softwares/haystack_bio_master/haystack/download_genome.py", line 21, in main
initialize_genome(args.name)
File "/picb/epigenome/usr/zhangge/Softwares/haystack_bio_master/haystack/haystack_common.py", line 213, in initialize_genome
from bioutilities import Genome_2bit
File "/picb/epigenome/usr/zhangge/Softwares/haystack_bio_master/haystack/bioutilities.py", line 20, in
from bx.intervals.intersection import Intersecter, Interval
File "/home/zhangge/miniconda3/envs/python27/lib/python2.7/site-packages/bx/intervals/init.py", line 7, in
from bx.intervals.intersection import * # noqa: F40
ImportError: /home/zhangge/miniconda3/envs/python27/lib/python2.7/site-packages/bx/intervals/intersection.so: undefined symbol: PyUnicodeUCS2_FromStringAndSize

How can I solve this? Thanks!

Hi,
New Python package version updates probably broke the code. Can you please use the Docker installation method instead? https://github.com/pinellolab/haystack_bio#other-installation-options

Thanks
Rick,