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Gabaldonlab / perSVade

perSVade: personalized Structural Variation detection
GNU General Public License v3.0
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C_ALL: cannot change locale (en_US.UTF-8): No such file or directory #11

Closed xibeixingchen closed 1 year ago

xibeixingchen commented 1 year ago

Hi,

I restarted the unbuntu server, using code commands, like singularity exec -e /home/jiazc/software/persvade_v1.sif bash -c 'source /opt/conda/etc/profile.d/conda.sh && conda activate perSVade_env && python /perSVade/scripts/perSVade call_SVs --ref /home/jiazc/work/alfalfa_genome/Muxu_Genome_Final_filter.fasta --mitochondrial_chromosome no_mitochondria --SVcalling_parameters /home/jiazc/work/persvade_output/parameter_optimization_random/optimized_parameters.json --repeats_file skip --verbose --fraction_available_mem 0.3 --threads 16 -o /home/jiazc/work/persvade_output/B186/call_SVs -sbam /home/jiazc/work/persvade_output/B186/aligned_reads/aligned_reads.bam.sorted' .but there was an error. How can I fix it. aligned_reads.bam.sorted.generating.txt

Thanks , Best, Jia

MikiSchikora commented 1 year ago

Hi,

Can you attach the full log of perSVade? I can't see the error now.

Best, Miquel Àngel Schikora

MikiSchikora commented 1 year ago

Hi,

Is this solved? If so you may close this issue.

Best, Miquel Àngel Schikora

MikiSchikora commented 1 year ago

Hi, Is this solved? I'd close the issue if so.

Miquel Àngel Schikora Barcelona Supercomputing Center