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fmfi-compbio / warpstr

Determining tandem repeat lengths using raw nanopore signals.
https://fmfi-compbio.github.io/warpstr/
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test wrong #9

Closed lihaicheng7003 closed 2 months ago

lihaicheng7003 commented 2 months ago

command bash run_test_case.sh

FileNotFoundError: [Errno 2] Unable to open file (unable to open file: name = 'test/test_output/Human_STR_1108232/fas5/test_run1/annot/bbbd03d2-0044-45e3-a6ea-290646eaacaa.fa

in addition, using ont-guppy-cpu=4.0.15, has incorrect guppy parameters: flowcell FLO-MIN106 and kit SQK-LSK109

Running WarpSTR with config: 'test/config_test.yaml'
... This could take approx. 3-5 minutes ...
--- Initial time of WarpSTR: 2024-04-16 16:46:54 ---
Flank length not set for locus - using default value of 110
2024-04-16 16:46:54 Processing 1 of 1 Locus name: Human_STR_1108232
incorrect guppy parameters: flowcell FLO-MIN106 and kit SQK-LSK109
Finished extraction of single fast5 reads mapped to the locus Human_STR_1108232
lihaicheng7003 commented 2 months ago

it caused by guppy annotation fail.

lihaicheng7003 commented 2 months ago

it my fault，use wrong guppy path