buttery-eel

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Model convention and availability of the aligner in buttery-eel

17

@SBurnard Moving this https://github.com/hasindu2008/nci-scripts/issues/1 conversation to here as these questions are about buttery-eel. It is a great suggestion about the model conversions. @Psy-Fer, we should maintain some server to standalone...

hasindu2008

Minimap2 would need a `-Y` in addition to `-y` I believe in the command below, the supplementary alignments are not hard clipped. ``` samtools fastq -TMM,ML test.mod.sam | minimap2 -ax...

hasindu2008

I tried this `rna_rp4_130bps_modbases_m6a_drach_sup` model for m6a calling and aligned the basecalled reads to the reference. Seems no alignments. See the commands below: ``` /install/buttery-eel-0.5.0+dorado7.4.12/scripts/eel --config rna_rp4_130bps_modbases_m6a_drach_sup.cfg --device cuda:all -i...

hasindu2008

Doesn't exit when ran out of memory

2

Buttery-eel does not exit when some child process gets killed by OS due to running out of memory. Affected version: 0.1.0 Observation: [Screencast from 20-09-24 17:40:56.webm](https://github.com/user-attachments/assets/b21ab65e-3092-40ab-98fd-dcad2456adb3)

imsuneth

Not sure if this is something fixed in a newer version as I am still using an old version. The issue is around returning the correct exit status. ``` ==========================================================================...

hasindu2008