You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
When I tried to build custom COI database,I got this error in step #generate UTAX database
##########this is my code
amptk database -i arth10000.BIN-consensus.fasta -f LCO1490 -r GGWACTAATCAATTTCCAAATCC --primer_required rev \
[05:14:28 PM]: OS: Ubuntu 20.04, 8 cores, ~ 17 GB RAM. Python: 3.10.13
[05:14:28 PM]: AMPtk v1.6.0, VSEARCH v2.25.0
[05:14:28 PM]: Base name set to: /home/tanyihua/miniconda3/envs/amptk/lib/python3.10/site-packages/amptk/DB/COI02_UTAX
[05:14:28 PM]: Searching for primers, this may take awhile: Fwd: GGTCAACAAATCATAAAGATATTGG Rev: GGATTTGGAAATTGATTAGTWCC
[05:14:28 PM]: 6,067 records loaded
[05:14:28 PM]: Using 8 cpus to process data
[05:14:29 PM]: 1 records passed (0.02%)
[05:14:29 PM]: Errors: 0 no taxonomy info, 0 no ID, 5,777 length out of range, 0 too many ambiguous bases, 289 no primers found
[05:14:29 PM]: Now dereplicating sequences (collapsing identical sequences)
[05:14:29 PM]: 1 records passed (0.02%)
[05:14:29 PM]: Creating UTAX Database, this may take awhile
Traceback (most recent call last):
File "/home/tanyihua/miniconda3/envs/amptk/bin/amptk", line 10, in
sys.exit(main())
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/site-packages/amptk/amptk.py", line 784, in main
mod.main(arguments)
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/site-packages/amptk/extract_region.py", line 673, in main
makeDB(OutName, args=args)
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/site-packages/amptk/extract_region.py", line 419, in makeDB
subprocess.call([usearch, '-makeudb_utax', input,
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/subprocess.py", line 345, in call
with Popen(*popenargs, **kwargs) as p:
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/subprocess.py", line 971, in init
self._execute_child(args, executable, preexec_fn, close_fds,
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/subprocess.py", line 1863, in _execute_child
raise child_exception_type(errno_num, err_msg, err_filename)
FileNotFoundError: [Errno 2] No such file or directory: 'usearch9'
##########
Why this happened?
The text was updated successfully, but these errors were encountered:
When I tried to build custom COI database,I got this error in step #generate UTAX database
##########this is my code
amptk database -i arth10000.BIN-consensus.fasta -f LCO1490 -r GGWACTAATCAATTTCCAAATCC --primer_required rev \
[05:14:28 PM]: OS: Ubuntu 20.04, 8 cores, ~ 17 GB RAM. Python: 3.10.13
[05:14:28 PM]: AMPtk v1.6.0, VSEARCH v2.25.0
[05:14:28 PM]: Base name set to: /home/tanyihua/miniconda3/envs/amptk/lib/python3.10/site-packages/amptk/DB/COI02_UTAX
[05:14:28 PM]: Searching for primers, this may take awhile: Fwd: GGTCAACAAATCATAAAGATATTGG Rev: GGATTTGGAAATTGATTAGTWCC
[05:14:28 PM]: 6,067 records loaded
[05:14:28 PM]: Using 8 cpus to process data
[05:14:29 PM]: 1 records passed (0.02%)
[05:14:29 PM]: Errors: 0 no taxonomy info, 0 no ID, 5,777 length out of range, 0 too many ambiguous bases, 289 no primers found
[05:14:29 PM]: Now dereplicating sequences (collapsing identical sequences)
[05:14:29 PM]: 1 records passed (0.02%)
[05:14:29 PM]: Creating UTAX Database, this may take awhile
Traceback (most recent call last):
File "/home/tanyihua/miniconda3/envs/amptk/bin/amptk", line 10, in
sys.exit(main())
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/site-packages/amptk/amptk.py", line 784, in main
mod.main(arguments)
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/site-packages/amptk/extract_region.py", line 673, in main
makeDB(OutName, args=args)
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/site-packages/amptk/extract_region.py", line 419, in makeDB
subprocess.call([usearch, '-makeudb_utax', input,
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/subprocess.py", line 345, in call
with Popen(*popenargs, **kwargs) as p:
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/subprocess.py", line 971, in init
self._execute_child(args, executable, preexec_fn, close_fds,
File "/home/tanyihua/miniconda3/envs/amptk/lib/python3.10/subprocess.py", line 1863, in _execute_child
raise child_exception_type(errno_num, err_msg, err_filename)
FileNotFoundError: [Errno 2] No such file or directory: 'usearch9'
##########
Why this happened?
The text was updated successfully, but these errors were encountered: