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  • #5

Closed
Open
Opened Oct 01, 2015 by Celine Mercier@mercierOwner

"Cannot reallocate memory for fuzzy matching results"

ecoPrimers -d mito_eco -e 3 -3 2 -l 30 -L 150 -r 6231 -c > nematoda.ecoprimers
Reading taxonomy database ...Ok
Reading sequence database ...
# Reading file mito_eco_001.sdx containing 5278 sequences...
Ok
Sequence read : 117
Database is constituted of   117 examples        corresponding to   117 species
                       and     0 counterexamples corresponding to     0 species
Total distinct species count 117

Indexing words in sequences
  Filtered sequences   117/  117          117          
ok
 Considered word of size 13 for filtering : 23
  Primers should be at least present in 81/117 example sequences
  Indexed sequences   117/  117  : considered words 2           
  Strict primer count : 2


  Primer sample : 
  + Primer : AGCCGATTATTCTGGAAC   sequence count : 115
  + Primer : TAGCCGATTATTCTGGAA   sequence count : 115

Encoding sequences for fuzzy pattern matching...
  Primers should be at least present in 105/117 example sequences
  Primers should not be present in more than 0/0 counterexample sequences
Primers     1/2 analyzed  => sequence : AGCCGATTATTCTGGAAC in 96 example and 0 counterexample sequences  Primers     2/2 analyzed  => sequence : TAGCCGATTATTCTGGAA in 94 example and 0 counterexample sequences       

On 2 analyzed primers 0 respect quorum conditions
Conserved primers for further analysis : 0/2
Error 2 in file aproxpattern.c line 233 : Cannot reallocate memory for fuzzy matching results
Aborted
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Reference: obitools/ecoprimers#5