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pachterlab / kallisto

Near-optimal RNA-Seq quantification
https://pachterlab.github.io/kallisto
BSD 2-Clause "Simplified" License
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Error when running #169

Open JChristopherEllis opened 6 years ago

JChristopherEllis commented 6 years ago

I am getting an error when I try and run Clark with 1.5Tb of RAM for a binned fragment genomes (relatively small). I did install all the databases including viruses and Eukaryotas. What can I do to resolve this issue?

./classify_metagenome.sh -O sample.txt -R output

The program did not find the database files for the provided settings and reference sequences (13755 targets). The program will build them. Starting the creation of the database of targets specific 31-mers from input files... terminate called after throwing an instance of 'std::bad_alloc' what(): std::bad_alloc ./classify_metagenome.sh: line 177: 24333 Aborted (core dumped) $LDIR/exe/CLARK $PARAM

mschilli87 commented 6 years ago

looks like an out-of memory situation to me...

hmassalha commented 4 years ago

got the same message ....out of memory...