-
Notifications
You must be signed in to change notification settings - Fork 14
error when barcoding and fast5 flags used #19
Description
Hi,
Use of --barcoding and --fast5 give error. Here is the command and the error.
Thanks
poreplex -i INPUT -o OUTPUT --barcoding --trim-adapter --basecall --parallel 5 --fast5
Poreplex version 0.4.1 by Hyeshik Chang [email protected]
- Cuts nanopore direct RNA sequencing data into bite-size pieces for RNA Biology
== Analysis settings ======================================
- Input: INPUT
- Output: OUTPUT
- Processes: 5
- Presets: rna-r941.cfg
- Basecall on-the-fly: Yes (albacore 2.3.1)
- Trim 3' adapter: Yes
- Filter concatenated read: No
- Separate by barcode: Yes
- Real-time alignment: No
- FASTQ in output: Yes
- FAST5 in output: Yes
- Basecall table in output: No
===========================================================
==> Processing FAST5 files
ERROR: Unhandled error [Errno 2] No such file or directory: '~/fast5/pass/BC3/FAK84611_6b938d7e6efe081830fee799484ebdfbbf1725f6_3.fast5'Task exception was never retrieved
future: <Task finished coro=<ProcessingSession.run_process_batch() done, defined at ~/lib/python3.5/site-packages/poreplex/pipeline.py:183> exception=CancelledError()>
concurrent.futures._base.CancelledError
| 100% of 665704 |################################| Elapsed: 0:00:19 Time: 0:00:19
==> Terminated.