readmanchiu
commented
1 month ago Does your computer have enough (>=32) cores?
Can you run with --debug --tmpdir <custom_tmp_dir>, and zip up <custom_tmp_dir> for me to take a look?
Open jawad9-11 opened 1 month ago
readmanchiu
commented
1 month ago Does your computer have enough (>=32) cores?
Can you run with --debug --tmpdir <custom_tmp_dir>, and zip up <custom_tmp_dir> for me to take a look?
Whenever i give command to straglr "straglr.py HGDP00776.bam hg38.fa 776 --min_str_len 2 --max_str_len 100 --min_ins_size 100 --genotype_in_size --min_support 2 --max_num_clusters 2 --nprocs 32" as i dont want to specify any region and want to scan whole region. everytime it says: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/work/home/jawad/miniconda3/envs/straglr/lib/python3.12/site-packages/src/ins.py", line 93, in find_ins batched_results = parallel_process(self.examine_regions, batches, self.nprocs) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/work/home/jawad/miniconda3/envs/straglr/lib/python3.12/site-packages/src/utils.py", line 21, in parallel_process results = p.map(func, args) ^^^^^^^^^^^^^^^^^ File "/work/home/jawad/miniconda3/envs/straglr/lib/python3.12/site-packages/pathos/multiprocessing.py", line 154, in map return _pool.map(star(f), zip(*args), **kwds) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/work/home/jawad/miniconda3/envs/straglr/lib/python3.12/site-packages/multiprocess/pool.py", line 367, in map return self._map_async(func, iterable, mapstar, chunksize).get() ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/work/home/jawad/miniconda3/envs/straglr/lib/python3.12/site-packages/multiprocess/pool.py", line 774, in get raise self._value TypeError: 'NoneType' object is not subscriptable