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epruesse / SINA

SINA - Reference based multiple sequence alignment
https://sina.readthedocs.io
GNU General Public License v3.0
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SINA not running #77

Closed tia-das closed 4 years ago

tia-das commented 4 years ago

I am running sina. every time the program gets killed at around 70%. i have changed % for ARB_MEMORY several times. ARB_MEMORY=77% sina -i amplicons_seeds_uc.fasta --db SSURef_NR99_132_SILVA_13_12_17_opt.arb -o sina_out.fasta --outtype fasta --search --meta-fmt csv --lca-fields tax_slv --fs-engine internal --num-pts 8 -v --calc-idty --turn --search-min-sim 0.8

[2019-11-23 12:55:35.080] [log] [info] Loglevel set to info 12:55:35 [SINA] This is SINA 1.4.0. 12:55:35 [libARBDB] ARB: no FastLoad File 'SSURef_NR99_132_SILVA_13_12_17_opt.ARM' found => loading entire DB 12:55:43 [ARB I/O] Loading names map... (for "SSURef_NR99_132_SILVA_13_12_17_opt.arb")

0% 10 20 30 40 50 60 70 80 90 100% |----|----|----|----|----|----|----|----|----|----|

12:55:44 [ARB I/O] Loading 695171 sequences...

0% 10 20 30 40 50 60 70 80 90 100% |----|----|----|----|----|----|----|----|----|----| ****Killed

kindly help me to deduce the problem..

epruesse commented 4 years ago

As in the other tickets - try the 1.6.x first. How much memory do you have?