Handle errors better and add new features #72

Psy-Fer · 2025-02-05T05:37:22Z

better error handling
--resume to resume a crashed run by providing the fastq or sam file of the crashed run
--dorado_model_path to work like dorado model paths
--estimate_poly_a polyA/T tail estimation
samples per second
qscores reported as floats instead of ints
update split script to handle floats and legacy ints
updated docs

Psy-Fer added 23 commits January 23, 2025 13:33

Add error test file for troubleshooting complicated errors

d7c73da

Add max batch time and double read skip tries

0a9cbc5

Kill all children on error and exit on errorcode 1

4abceae

add max_batch_time arg

525b52c

Add --resume feature

d467a38

test --resume

253c982

fix missing quote

fe081a6

fix identity bug in test

9a64f6a

make qscore a float again

36c4f90

Round float qscore

8883ffc

Add write permission handlers

705239a

add more access checks

1c94ea2

move outpit permission check to main proc

bc7ae94

Add Anakin proc Supervisor

2d18c1a

use float as it works for int or float

8f68c20

Add samples per second reporting

49130f9

Update docs

0467537

Add polyT/A tail estimation to sam output

b892aba

Add dorado_model_path and mod_models

338b2ae

Add above_768_flag and dynamic cli

389dfdd

bump basecall client to 7.6.8

980c7ed

update docs

9425bb2

update split script to detect qs:f: for qscore floats

85bf574

Psy-Fer self-assigned this Feb 5, 2025

Psy-Fer merged commit 4668717 into main Feb 5, 2025
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