Comments (7)
AndreaGuarracino
commented on August 11, 2024
@Zoeyoungxy, how many Gb of RAM do you have? It seems an out of memory problem.
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Zoeyoungxy
commented on August 11, 2024
@Zoeyoungxy, how many Gb of RAM do you have? It seems an out of memory problem.
$ free -h
total used free shared buff/cache available
Mem: 1.0T 777G 1.2G 21M 229G 229G
Swap: 4.0G 3.3G 701M
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AndreaGuarracino
commented on August 11, 2024
Can you share the data?
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Zoeyoungxy
commented on August 11, 2024
Sure, I am willing to share. But the data is quite large, with an uncompressed fasta of 73Gb. Can I send the gzipped fasta file to your email?
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AndreaGuarracino
commented on August 11, 2024
Thank you!
Please compress the file with bgzip -@ 32 -l 9 chr5_combined.fa and upload it on GoogleDrive or similar. You can then send the link to my email [email protected]
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Zoeyoungxy
commented on August 11, 2024
Thank you!
Please compress the file withbgzip -@ 32 -l 9 chr5_combined.faand upload it on GoogleDrive or similar. You can then send the link to my email [email protected]
Sure! Thank you!
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AndreaGuarracino
commented on August 11, 2024
total used free shared buff/cache available
Mem: 1.0T 777G 1.2G 21M 229G 229G
Swap: 4.0G 3.3G 701M
I am a bit confused. Do you have 1.2G of free memory?
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Related Issues (20)
- Parameters optimization
- [help] My reference genome of a diploid organism is a primary assembly HOT 3
- Gradual increase of pan-genomes HOT 1
- computational efficiency of pggb HOT 3
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- Setting the poa-length-target(s)
- A null vcf file HOT 3
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- the effect of `n_mappings`
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- run without errors and outputs HOT 7
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- Recommended practices for downstream analyses
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- PGGB singularity vg deconstruct not recognizing sample prefix
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