Invalid kmer coverage histogram
s4251484 opened this issue · 1 comments
hi @andrewjpage and team
i encountered the following error with one of my samples (works fine on the other samples):
The reason why should be in the spades.log file in each directory.
and here is the output of one of the spades.log in the temp directory
Verification of expression 'cov_.size() > 10' failed in function 'void coverage_model::KMerCoverageModel::Fit()'. In file '/spades/assembler/src/common/modules/coverage_model/kmer_coverage_model.cpp' on line 187. Message 'Invalid kmer coverage histogram, make sure that the coverage is indeed uniform'. Verification of expression 'cov_.size() > 10' failed in function 'void coverage_model::KMerCoverageModel::Fit()'. In file '/spades/assembler/src/common/modules/coverage_model/kmer_coverage_model.cpp' on line 187. Message 'Invalid kmer coverage histogram, make sure that the coverage is indeed uniform'. spades-core: /spades/assembler/src/common/modules/coverage_model/kmer_coverage_model.cpp:187: void coverage_model::KMerCoverageModel::Fit(): Assertion cov_.size() > 10' failed.`
Any idea?
hi andrew,
I got the same error like above:
Verification of expression 'cov_.size() > 10' failed in function 'void coverage_model::KMerCoverageModel::Fit()'. In file '/spades/src/common/modules/coverage_model/kmer_coverage_model.cpp' on line 187. Message 'Invalid kmer coverage histogram, make sure that the coverage is indeed uniform'.
Verification of expression 'cov_.size() > 10' failed in function 'void coverage_model::KMerCoverageModel::Fit()'. In file '/spades/src/common/modules/coverage_model/kmer_coverage_model.cpp' on line 187. Message 'Invalid kmer coverage histogram, make sure that the coverage is indeed uniform'.
spades: /spades/src/common/modules/coverage_model/kmer_coverage_model.cpp:187: void coverage_model::KMerCoverageModel::Fit(): Assertion `cov_.size() > 10' failed.
== Error == system call for: "['[path]/SPAdes-3.11.1-Linux/bin/spades', '[path]/82_extract_in_edited_plants/Ciherang_spades_5-1L4/K21/configs/config.info', '[path]/82_extract_in_edited_plants/Ciherang_spades_5-1L4/K21/configs/careful_mode.info']" finished abnormally, err code: -6
Do you have any helpful idea?