buttery-eel

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Add version checks for guppy and lib

2

After starting the guppy server but before connecting a client, I should do a check that the guppy server version matches the installed guppy client lib version. I think I...

Psy-Fer

Advice needed: Low percentage of CPU/GPU usage when basecalling

10

Hi @Psy-Fer and @hasindu2008 , Hope you are doing well. I am trying to run a simulation analysis use squigglator and buttery-eel. The simulated BLOW5 file looks good. I am...

youyupei

Add argument for Guppy "chunks_per_runner"

4

In testing buttery-eel with some BLOW5 data for basecalling, I realized that there is no "--chunks_per_runner" argument that could be set and passed through to Guppy. Is this something that...

mshamash

add barcoding info to the sequencing summary when turned on

1

Here is an example of the file format of a seq sum file when bacoding is turned on in minknow ``` filename_fastq filename_fast5 filename_pod5 parent_read_id read_id run_id channel mux minknow_events...

Psy-Fer

Add the tags here https://github.com/nanoporetech/dorado/blob/release-v0.7/documentation/SAM.md#sam-specification

Psy-Fer

Add model version to output

3

When ` --config dna_r10.4.1_e8.2_400bps_5khz_modbases_5mc_sup_prom.cfg` is given as the model, this doesn't say what the model version is for matching with clair3 variant calling models. To fix this, I should pull...

Psy-Fer

Detect the basecall model automatically

1

Use slow5 header information to warn/error if the wrong pore model has been selected.

hasindu2008

Enable duplex calling with the fake 10 read hack to force the basecaller to spit the called reads for a channel out. It looks like v7.4.12 dorado server has not...

Psy-Fer

move_and_trace_enabled has changed to move_enabled in ont-pybasecall-client-lib 7.4.12

1

Hi James, Just wanted to flag for your attention that the name of this parameter has changed in the latest version of the ont-dorado server, for no specific reason it...

michaelodear

Some difference in the thread model from v0.4.2->0.5.1?

3

When tested by @kisarur on nci-Gadi with a command line like below: ``` buttery-eel -i /g/data/ox63/slow5-testdata/hg2_prom_lsk114_5khz_subsample/PGXXXX230339_reads_500k.blow5 -o /path/to/reads.fastq -g --port 5000 --use_tcp --config -x cuda:all --guppy_batchsize 20000 --max_queued_reads 20000 --slow5_threads...

hasindu2008