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ANGSD / angsd

Program for analysing NGS data.
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Killed #625

Open isnmn opened 4 months ago

isnmn commented 4 months ago

Hi, When I run this command (

angsd -bam Individual_bam.filelist -doMajorMinor 4 -doMaf 1 -GL 1 -out Ind_MajMin4_maf1_GL1_rB255 -ref /export/home4/2762262d/MAIN/REFERENCE_NORMALIZED/Psun_ID_Normalized_4July.fasta -remove_bads 255 -minMapQ 20
        -> Inputtype is BAM/CRAM
[multiReader] 46 samples in 46 input files

) I get this error:

`-> Allocated ~ 2720 million nodes to the nodepool, this is not an estimate of the memory usage

    -> Allocated ~ 2730 million nodes to the nodepool, this is not an estimate of the memory usage

    -> Allocated ~ 2740 million nodes to the nodepool, this is not an estimate of the memory usage

    -> Allocated ~ 2750 million nodes to the nodepool, this is not an estimate of the memory usage

    -> Allocated ~ 2760 million nodes to the nodepool, this is not an estimate of the memory usage

    -> Allocated ~ 2770 million nodes to the nodepool, this is not an estimate of the memory usage

/var/spool/torque/mom_priv/jobs/552883.headnode03.cent.gla.ac.uk.SC: line 30: 58829 Killed angsd -bam

Individual_bam.filelist -doMajorMinor 4 -doMaf 1 -GL 1 -out Ind_MajMin4_maf1_GL1_rB255 -ref /export/home4/2762262d/MAIN/REFERENCE_NORMALIZED/Psun_ID_Normalized_4July.fasta -remove_bads 255 -minMapQ 20`

Could you help please?

renatasoar3s commented 3 months ago

Try changing ".filelist" to ".bamlist". It worked for me.