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baoe / AlignGraph

Algorithm for secondary de novo genome assembly guided by closely related references
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std::bad_alloc #2

Closed d-j-e closed 10 years ago

d-j-e commented 10 years ago

Ran AlignGraph with the following command: AlignGraph --read1 2011C-3493_1.fa --read2 2011C-3493_2.fa --contig 2011C-3493_contigs.fa --genome NC_018658.fa --distanceLow 100 --distanceHigh 1495 --extendedContig 2011C-3493_contigs_extended.fa --remainingContig 2011C-3493_contigs_remaining.fa

and got the following error:

(0) Alignment finished

CHROMOSOME 0: (1) chromosome loaded (2) contig alignment loaded terminate called after throwing an instance of 'std::bad_alloc' what(): std::bad_alloc Aborted (core dumped)

baoe commented 10 years ago

Thanks for the report.

It is because your system was not able to allocate enough memory for the program run and is not a bug of AlignGraph. Make sure your system has enough memory and rerun it.

Best, Bao

Ran AlignGraph with the following command: AlignGraph --read1 2011C-3493_1.fa --read2 2011C-3493_2.fa --contig 2011C-3493_contigs.fa --genome NC_018658.fa --distanceLow 100 --distanceHigh 1495 --extendedContig 2011C-3493_contigs_extended.fa --remainingContig 2011C-3493_contigs_remaining.fa

and got the following error:

(0) Alignment finished

CHROMOSOME 0: (1) chromosome loaded (2) contig alignment loaded terminate called after throwing an instance of 'std::bad_alloc' what(): std::bad_alloc Aborted (core dumped)

Reply to this email directly or view it on GitHub: https://github.com/baoe/AlignGraph/issues/2

d-j-e commented 10 years ago

Thanks - will do. At least I now know what 'std::bad_alloc' is...