python3 /home/aclab/apps/MINES/genomic_MINES.py --fraction_modified_plus /Drive8/output_E6_nefminus.fraction_modified_reads.plus.wig.bed --coverage_plus /Drive8/output_E6_nefminus.coverage.plus.bedgraph --coverage_minus /Drive8/output_E6_nefminus.coverage.minus.bedgraph --fraction_modified_minus output_E6_nefminus.fraction_modified_reads.minus.wig.bed --output m6A_output_filename.bed --ref /Drive1/human_index/Homo_sapiens.GRCh38.dna.toplevel.fa
/home/aclab/.local/lib/python3.6/site-packages/sklearn/externals/joblib/init.py:15: DeprecationWarning: sklearn.externals.joblib is deprecated in 0.21 and will be removed in 0.23. Please import this functionality directly from joblib, which can be installed with: pip install joblib. If this warning is raised when loading pickled models, you may need to re-serialize those models with scikit-learn 0.21+.
warnings.warn(msg, category=DeprecationWarning)
Traceback (most recent call last):
File "/home/aclab/apps/MINES/genomic_MINES.py", line 5, in
import pybedtools
ModuleNotFoundError: No module named 'pybedtools'
python3 /home/aclab/apps/MINES/genomic_MINES.py --fraction_modified_plus /Drive8/output_E6_nefminus.fraction_modified_reads.plus.wig.bed --coverage_plus /Drive8/output_E6_nefminus.coverage.plus.bedgraph --coverage_minus /Drive8/output_E6_nefminus.coverage.minus.bedgraph --fraction_modified_minus output_E6_nefminus.fraction_modified_reads.minus.wig.bed --output m6A_output_filename.bed --ref /Drive1/human_index/Homo_sapiens.GRCh38.dna.toplevel.fa /home/aclab/.local/lib/python3.6/site-packages/sklearn/externals/joblib/init.py:15: DeprecationWarning: sklearn.externals.joblib is deprecated in 0.21 and will be removed in 0.23. Please import this functionality directly from joblib, which can be installed with: pip install joblib. If this warning is raised when loading pickled models, you may need to re-serialize those models with scikit-learn 0.21+. warnings.warn(msg, category=DeprecationWarning) Traceback (most recent call last): File "/home/aclab/apps/MINES/genomic_MINES.py", line 5, in
import pybedtools
ModuleNotFoundError: No module named 'pybedtools'