cooler cload pairs memory usage error

[sfh1111]

Hi,

Thanks for super cool tool:)
I am trying to use cooler cload pairs on 230Gb pairs.gz file with the following command: cooler cload pairs -c1 2 -p1 3 -c2 4 -p2 5 --assembly mm10 --temp-dir tmp mm10_genome.sizes.200 xxx.nodups.pairs.gz xxx.cool . the tmpxxxx.cool file is created normally but when it writs the data to the final cool file it collapses and gives the following error: TERM_MEMLIMIT: job killed after reaching LSF memory usage limit. Exited with exit code 137.
I have already tried to give this job more memory but it always stop at the same point when it start writing to the cool file and then stop after 4000Kb.
Any suggestions?

[nvictus]

This should be fixed in v0.10 via #408. Can you give it a try?

[nvictus]

Please re-open if this hasn't been fixed.

[sfh1111]

Hi, Thanks for the reply. I have actually made a bypass- I have used smaller files to create pairs file and merged the files after I created the cool files. Thanks for your help and for this useful tool, Shdema

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On Mon, Jun 3, 2024, 12:07 AM Nezar Abdennur ***@***.***> wrote: Please re-open if this hasn't been fixed. — Reply to this email directly, view it on GitHub <#412 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AICSXKURBTNQWIGIXRUIET3ZFOCSBAVCNFSM6AAAAABGASNBQSVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDCNBUGAZDCMRVGY> . You are receiving this because you authored the thread.Message ID: ***@***.***>