Question: SPAdes, error in Subclustering Hamming Graph
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gravatar for khayabusa
2.8 years ago by
khayabusa0
khayabusa0 wrote:

HI!! :)

I'm using SPAdes with metagenomics parameters metaspades.py), with paired end reads 2*300, and it shows me this error.

Help please!


kmers in total. Among them 4100410 (1.06414%) are singletons. 0:52:38.054 11G / 21G INFO General (main.cpp : 180) Subclustering Hamming graph

=== Stack Trace === [0x4278cb] [0x42db11] [0x402d77] [0x5404c0] [0x40661d] Verification of expression '(intptr_t) MappedRegion != -1L' failed in function 'MMappedReader::MMappedReader(const string&, bool, size_t, off_t, size_t)'. In file '/spades/src/modules/io/kmers_io/mmapped_reader.hpp' on line 98. Message 'mmap(2) failed. Reason: Cannot allocate memory. Error code: 12'. Verification of expression '(intptr_t) MappedRegion != -1L' failed in function 'MMappedReader::MMappedReader(const string&, bool, size_t, off_t, size_t)'. In file '/spades/src/modules/io/kmers_io/mmapped_reader.hpp' on line 98. Message 'mmap(2) failed. Reason: Cannot allocate memory. Error code: 12'. hammer: /spades/src/modules/io/kmers_io/mmapped_reader.hpp:98: MMappedReader::MMappedReader(const string&, bool, size_t, off_t, size_t): Assertion `(intptr_t) MappedRegion != -1L' failed.

== Error == system call for: "['/3TB/Fabricio/SPAdes-3.9.1-Linux/bin/hammer', '/media/lewontin/LaCie/EnsambleSPAdes/CyanosTrimPairMXI0.555/CyanosTriPaMetaSPAdes/corrected/configs/config.info']" finished abnormally, err code: -6

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