Resume Trinity run killed by shortage of space

[Atul Kakrana]

Hi List,

Quick question about resuming trinity run which got killed because there was no space left on disk. Can I just run trinity and it will redo the last step? or will it consider last step done, which is not the case?

This is last entry in log:

* Running CMD: /home/kakrana/tools/trinityrnaseq-2.1.1/Chrysalis/ReadsToTranscripts -i both.fa -f /home/kakrana/7.assembl/3.genomeA_trinity/v2/trinity_out_dir/chrysalis/bundled_iworm_contigs.fasta -o /home/kakrana/7.assembl/3.genomeA_trinity/v2/trinity_out_dir/chrysalis/readsToComponents.out -t 42 -max_mem_reads 50000000  -strand
* Running CMD: /bin/sort --parallel=42 -T . -S 450G -k 1,1n /home/kakrana/7.assembl/3.genomeA_trinity/v2/trinity_out_dir/chrysalis/readsToComponents.out > /home/kakrana/7.assembl/3.genomeA_trinity/v2/trinity_out_dir/chrysalis/readsToComponents.out.sort
Trinity run failed. Must investigate error above.

Thanks

p.s. - This is a different assembly from one of my other post today

Atul

[Tiago Hori]

It will re-start from the last completed step as long as you point to the same output folder.

T.

"Profanity the is the only language all programmers understand" 

Sent from my iPhone, the universal excuse for my poor spelling.

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